Category

SW 1 Cellular processes
SW 1.1 Cell envelope and cell division
SW 1.1.1 Cell wall synthesis
SW 1.1.1.1 Biosynthesis of peptidoglycan
SW 1.1.1.2 Autolytic activity required for peptidoglycan synthesis (cell elongation)
SW 1.1.1.3 Biosynthesis of lipoteichoic acid
SW 1.1.1.4 Biosynthesis of teichoic acid
SW 1.1.1.5 Biosynthesis of teichuronic acid
SW 1.1.1.6 Export of anionic polymers and attachment to peptidoglycan
SW 1.1.1.7 Penicillin-binding proteins
SW 1.1.1.8 Biosynthesis of the carrier lipid undecaprenylphosphate
SW 1.1.2 Cell shape
SW 1.1.3 Cell wall degradation/ turnover
SW 1.1.3.1 Autolysis
SW 1.1.3.2 Autolysis/ based on similarity
SW 1.1.3.3 Utilization of cell wall components
SW 1.1.3.4 Endopeptidases
SW 1.1.3.5 N-acetyl-β-D-glucosaminidases
SW 1.1.3.6 Cell wall degradation/ turnover/ Additional genes
SW 1.1.4 Capsule biosynthesis and degradation
SW 1.1.5 Cell wall/ other
SW 1.1.6 Cell wall/ other/ based on similarity
SW 1.1.7 Membrane dynamics
SW 1.1.8 Cell division
SW 1.1.8.1 The Min system
SW 1.1.8.2 Other genes
SW 1.1.9 Cell division/ based on similarity
SW 1.2 Transporters
SW 1.2.1 ABC transporters
SW 1.2.1.1 Importers
SW 1.2.1.1.1 Uptake of carbon sources
SW 1.2.1.1.2 Uptake of amino acids
SW 1.2.1.1.3 Uptake of peptides
SW 1.2.1.1.4 Uptake of compatible solutes for osmoprotection
SW 1.2.1.1.5 Uptake of iron/ siderophores
SW 1.2.1.1.6 Uptake of ions
SW 1.2.1.1.7 Uptake of cofactors
SW 1.2.1.2 Exporters
SW 1.2.1.2.1 Efflux of antibiotics
SW 1.2.1.2.2 Export of antibiotic substances
SW 1.2.1.2.3 Export of peptides
SW 1.2.1.2.4 Export of cell wall components
SW 1.2.1.2.5 Export of ions
SW 1.2.1.2.6 Exporters of unknown function
SW 1.2.1.3 Regulatory ABC transporters
SW 1.2.1.4 Unknown ABC transporters
SW 1.2.2 Phosphotransferase system
SW 1.2.2.1 General PTS proteins
SW 1.2.2.2 Sugar specific PTS proteins
SW 1.2.3 ECF transporter
SW 1.2.3.1 The general components of the ECF transporters
SW 1.2.3.2 The substrate-specific S components of the ECF transporters
SW 1.2.3.3 Class I ECF transporter
SW 1.2.4 Transporters/ other
SW 1.2.4.1 Amino acid transporters
SW 1.2.4.1.1 Solute:sodium symporter family
SW 1.2.4.1.2 Other amino acid transporters
SW 1.2.4.10 Siderophore exporters
SW 1.2.4.11 Other exporters
SW 1.2.4.12 Other transporters
SW 1.2.4.13 Metal ion exporters
SW 1.2.4.14 Multidrug exporters
SW 1.2.4.15 Multidrug exporters/ based on homology
SW 1.2.4.2 Peptide transporter
SW 1.2.4.3 Carbohydrate transporter
SW 1.2.4.4 Transporter for organic acids
SW 1.2.4.5 Metal ion transporter
SW 1.2.4.6 Nucleotide/ nucleoside transporter
SW 1.2.4.7 Transporter for cofactors
SW 1.2.4.8 Uptake of other small ions
SW 1.2.4.9 Uptake of compatible solutes
SW 1.3 Homeostasis
SW 1.3.1 Metal ion homeostasis (K, Na, Ca, Mg)
SW 1.3.1.1 Magnesium uptake/ efflux
SW 1.3.1.2 Sodium uptake/ export
SW 1.3.1.3 Potassium uptake/ export
SW 1.3.1.4 Metal ion homeostasis/ Other
SW 1.3.2 Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)
SW 1.3.2.1 Copper
SW 1.3.2.2 Manganese
SW 1.3.2.3 Zinc
SW 1.3.2.4 Trace metals/ Other
SW 1.3.3 Acquisition of iron
SW 1.3.3.1 ABC transporters for the uptake of iron/ siderophores
SW 1.3.3.2 Elemental iron transport system
SW 1.3.3.3 Acquisition of iron / Other
SW 1.3.4 Acquisition of iron/ based on similarity
SW 1.3.5 PH homeostasis
SW 2 Metabolism
SW 2.1 Electron transport and ATP synthesis
SW 2.1.1 Regulators of electron transport
SW 2.1.2 Respiration
SW 2.1.2.1 Terminal oxidases
SW 2.1.2.2 Anaerobic respiration
SW 2.1.2.3 Anaerobic respiration/based on similarity
SW 2.1.2.4 Respiration/ other
SW 2.1.3 Electron transport/ other
SW 2.1.4 Electron transport/ other/ based on similarity
SW 2.1.5 ATP synthesis
SW 2.1.5.1 ATPase
SW 2.1.5.2 Substrate-level phosphorylation
SW 2.2 Carbon metabolism
SW 2.2.1 Carbon core metabolism
SW 2.2.1.1 Glycolysis
SW 2.2.1.2 Gluconeogenesis
SW 2.2.1.3 Pentose phosphate pathway
SW 2.2.1.4 TCA cycle
SW 2.2.1.5 Overflow metabolism
SW 2.2.2 Utilization of specific carbon sources
SW 2.2.2.1 Utilization of organic acids
SW 2.2.2.10 Utilization of mannitol
SW 2.2.2.11 Utilization of glucitol
SW 2.2.2.12 Utilization of rhamnose
SW 2.2.2.13 Utilization of gluconate
SW 2.2.2.14 Utilization of glucarate/galactarate
SW 2.2.2.15 Utilization of hexuronate
SW 2.2.2.16 Utilization of inositol
SW 2.2.2.17 Utilization of amino sugars
SW 2.2.2.18 Utilization of beta-glucosides
SW 2.2.2.19 Utilization of sucrose
SW 2.2.2.2 Utilization of acetoin
SW 2.2.2.20 Utilization of trehalose
SW 2.2.2.21 Utilization of melibiose
SW 2.2.2.22 Utilization of maltose
SW 2.2.2.23 Utilization of starch/ maltodextrin
SW 2.2.2.24 Utilization of galactan
SW 2.2.2.25 Utilization of glucomannan
SW 2.2.2.26 Utilization of pectin
SW 2.2.2.27 Utilization of other polymeric carbohydrates
SW 2.2.2.28 Utilization of other pentoses and hexoses
SW 2.2.2.3 Utilization of glycerol/ glycerol-3-phosphate
SW 2.2.2.4 Utilization of ribose
SW 2.2.2.5 Utilization of xylan/ xylose
SW 2.2.2.6 Utilization of arabinan/ arabinose/ arabitol
SW 2.2.2.7 Utilization of fructose
SW 2.2.2.8 Utilization of galactose
SW 2.2.2.9 Utilization of mannose
SW 2.3 Amino acid/ nitrogen metabolism
SW 2.3.1 Biosynthesis/ acquisition of amino acids
SW 2.3.1.1 Biosynthesis/ acquisition of glutamate/ glutamine/ ammonium assimilation
SW 2.3.1.10 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine
SW 2.3.1.11 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine/ based on similarity
SW 2.3.1.12 Biosynthesis/ acquisition of branched-chain amino acids
SW 2.3.1.13 Biosynthesis/ acquisition of aromatic amino acids
SW 2.3.1.14 Biosynthesis/ acquisition of histidine
SW 2.3.1.2 Biosynthesis/ acquisition of proline
SW 2.3.1.3 Biosynthesis/ acquisition of proline/ based on similarity
SW 2.3.1.4 Biosynthesis/ acquisition of arginine
SW 2.3.1.5 Biosynthesis/ acquisition of aspartate/ asparagine
SW 2.3.1.6 Biosynthesis/ acquisition of lysine/ threonine
SW 2.3.1.7 Biosynthesis/ acquisition of lysine/ threonine/ based on similarity
SW 2.3.1.8 Biosynthesis/ acquisition of serine/ glycine/ alanine
SW 2.3.1.9 Biosynthesis/ acquisition of cysteine
SW 2.3.2 Utilization of amino acids
SW 2.3.2.1 Utilization of glutamine/ glutamate
SW 2.3.2.10 Utilization of gamma-amino butyric acid
SW 2.3.2.2 Utilization of proline
SW 2.3.2.3 Utilization of proline/ based on similarity
SW 2.3.2.4 Utilization of arginine/ ornithine
SW 2.3.2.5 Utilization of histidine
SW 2.3.2.6 Utilization of asparagine/ aspartate
SW 2.3.2.7 Utilization of alanine/ serine
SW 2.3.2.8 Utilization of threonine/ glycine
SW 2.3.2.9 Utilization of branched-chain amino acids
SW 2.3.3 Utilization of nitrogen sources other than amino acids
SW 2.3.3.1 Utilization of nitrate/ nitrite
SW 2.3.3.2 Utilization of urea
SW 2.3.3.3 Utilization of amino sugars
SW 2.3.3.4 Utilization of peptides
SW 2.3.3.5 Utilization of proteins
SW 2.3.4 Putative amino acid transporter
SW 2.4 Lipid metabolism
SW 2.4.1 Utilization of lipids
SW 2.4.1.1 Utilization of phospholipids
SW 2.4.1.2 Utilization of phospholipids/ based on similarity
SW 2.4.1.3 Utilization of fatty acids
SW 2.4.1.4 Utilization of lipids/ other
SW 2.4.2 Biosynthesis of lipids
SW 2.4.2.1 Biosynthesis of fatty acids
SW 2.4.2.2 Biosynthesis of phospholipids
SW 2.4.2.3 Biosynthesis of isoprenoids
SW 2.4.3 Lipid metabolism/ other
SW 2.5 Nucleotide metabolism
SW 2.5.1 Utilization of nucleotides
SW 2.5.2 Biosynthesis/ acquisition of nucleotides
SW 2.5.2.1 Biosynthesis/ acquisition of purine nucleotides
SW 2.5.2.2 Biosynthesis/ acquisition of purine nucleotides/ based on similarity
SW 2.5.2.3 Purine salvage and interconversion
SW 2.5.2.4 Biosynthesis/ acquisition of pyrimidine nucleotides
SW 2.5.2.5 Biosynthesis/ acquisition of nucleotides/ other
SW 2.5.2.6 Biosynthesis/ acquisition of nucleotides/ other/ based on similarity
SW 2.5.3 Metabolism of signalling nucleotides
SW 2.5.4 Nucleotide metabolism/ other
SW 2.6 Additional metabolic pathways
SW 2.6.1 Biosynthesis of cell wall components
SW 2.6.1.1 Biosynthesis of peptidoglycan
SW 2.6.1.2 Biosynthesis of lipoteichoic acid
SW 2.6.1.3 Biosynthesis of teichoic acid
SW 2.6.1.4 Biosynthesis of teichuronic acid
SW 2.6.1.5 Biosynthesis of the carrier lipid undecaprenylphosphate
SW 2.6.2 Biosynthesis of cofactors
SW 2.6.2.1 Biosynthesis/ acquisition of biotin
SW 2.6.2.10 Biosynthesis of molybdopterin
SW 2.6.2.11 Biosynthesis of NAD(P)
SW 2.6.2.12 Biosynthesis of pyridoxal phosphate
SW 2.6.2.13 Biosynthesis/ acquisition of cobalamine (B12))
SW 2.6.2.2 Biosynthesis/ acquisition of riboflavin/ FAD
SW 2.6.2.3 Biosynthesis/ acquisition of thiamine
SW 2.6.2.4 Biosynthesis of coenzyme A
SW 2.6.2.5 Biosynthesis of folate
SW 2.6.2.6 Biosynthesis of heme/ siroheme
SW 2.6.2.7 Biosynthesis and scavenging of lipoic acid
SW 2.6.2.8 Biosynthesis of menaquinone
SW 2.6.2.9 Biosynthesis of menaquinone/ based on similarity
SW 2.6.3 Phosphate metabolism
SW 2.6.4 Sulfur metabolism
SW 2.6.4.1 Conversion of S-methyl cysteine to cysteine
SW 2.6.4.2 sulfur metabolism/ general
SW 2.6.4.3 Conversion of S-(2-succino)cysteine to cysteine
SW 2.6.5 Iron metabolism
SW 2.6.5.1 Acquisition of iron / Other
SW 2.6.5.2 Acquisition of iron/ based on similarity
SW 2.6.5.3 Biosynthesis of iron-sulfur clusters
SW 2.6.5.4 ABC transporters for the uptake of iron/ siderophores
SW 2.6.5.5 Elemental iron transport system
SW 2.6.5.6 Iron export
SW 2.6.6 Miscellaneous metabolic pathways
SW 2.6.6.1 Biosynthesis of antibacterial compounds
SW 2.6.6.2 Biosynthesis of bacillithiol
SW 2.6.6.3 Biosynthesis of dipicolinate
SW 2.6.6.4 Biosynthesis of glycine betaine
SW 2.6.6.5 Biosynthesis of glycogen
SW 2.6.6.6 Metabolism of polyamines
SW 2.6.6.7 Biosynthesis of rhamnose (for the exosporium)
SW 2.7 Detoxification reactions
SW 3 Information processing
SW 3.1 Genetics
SW 3.1.1 DNA replication
SW 3.1.2 DNA replication/ based on similarity
SW 3.1.3 DNA condensation/ segregation
SW 3.1.4 DNA restriction/ modification
SW 3.1.5 DNA repair/ recombination
SW 3.1.5.1 Excision of prophages
SW 3.1.5.2 A/P endonucleases
SW 3.1.5.3 Spore-encoded non-homologous end joining system
SW 3.1.5.4 Double strand breaks repair
SW 3.1.5.5 Oxidized guanine (GO) DNA repair system
SW 3.1.5.6 Other proteins
SW 3.1.5.7 Mismatch repair (MMR)
SW 3.1.6 DNA repair/ recombination/ based on similarity
SW 3.1.7 Genetic competence
SW 3.1.8 Genetics/ other/ based on similarity
SW 3.1.9 Newly identified competence genes
SW 3.2 RNA synthesis and degradation
SW 3.2.1 Transcription
SW 3.2.1.1 RNA polymerase
SW 3.2.1.2 Sigma factors
SW 3.2.1.3 Transcription elongation/ termination
SW 3.2.1.4 Prophage/ phage transcription
SW 3.2.2 RNA chaperones
SW 3.2.3 DEAD-box RNA helicases
SW 3.2.4 RNases
SW 3.2.4.1 Exoribonucleases
SW 3.2.4.2 Endoribonucleases
SW 3.2.4.3 RNA pyrophosphohydrolase
SW 3.2.4.4 RNases/ Other
SW 3.2.5 RNase/ based on similarity
SW 3.3 Protein synthesis, modification and degradation
SW 3.3.1 Translation
SW 3.3.1.1 Ribosomal RNA
SW 3.3.1.10 Aminoacyl-tRNA synthetases
SW 3.3.1.11 Translation factors
SW 3.3.1.12 Translation/ other
SW 3.3.1.13 Translation/ other/ based on similarity
SW 3.3.1.14 Translation factor modification and maturation
SW 3.3.1.2 rRNA modification and maturation
SW 3.3.1.3 rRNA modification and maturation/ based on similarity
SW 3.3.1.4 Ribosomal proteins
SW 3.3.1.5 Ribosomal protein/ based on similarity
SW 3.3.1.6 Ribosome assembly
SW 3.3.1.7 tRNA
SW 3.3.1.8 tRNA modification and maturation
SW 3.3.1.9 tRNA modification and maturation/ based on similarity
SW 3.3.2 Chaperones/ protein folding
SW 3.3.3 Chaperone/ protein folding/ based on similarity
SW 3.3.4 Protein modification
SW 3.3.4.1 Protein maturation
SW 3.3.4.2 Protein kinases
SW 3.3.4.4 Protein phosphatases
SW 3.3.4.5 Protein acetylases/ deacetylases
SW 3.3.4.6 Protein acetylase/ deacetylase/ based on similarity
SW 3.3.4.7 Protein deaminase
SW 3.3.4.8 Protein modification/ other
SW 3.3.5 Protein secretion
SW 3.3.6 Protein secretion/ based on similarity
SW 3.3.7 Proteolysis
SW 3.3.7.1 Protein quality control
SW 3.3.7.2 Extracellular feeding proteases
SW 3.3.7.3 Proteolysis during sporulation/ germination
SW 3.3.7.4 Additional proteins involved in proteolysis
SW 3.4 Regulation of gene expression
SW 3.4.1 Sigma factors and their control
SW 3.4.1.1 Sigma factors
SW 3.4.1.2 Control of sigma factors
SW 3.4.2 Transcription factors and their control
SW 3.4.2.1 Two-component system response regulators
SW 3.4.2.2 Control of two-component response regulators
SW 3.4.2.2.1 Two-component sensor kinase
SW 3.4.2.2.2 Response regulator aspartate phosphatase
SW 3.4.2.2.3 Control of response regulators/ other
SW 3.4.2.3 PRD-type regulators
SW 3.4.2.4 Control of PRD-type regulators
SW 3.4.2.5 Transcription factors/ other
SW 3.4.2.6 Transcription factor/ other/ based on similarity
SW 3.4.2.7 Control of transcription factor (other than two-component system)
SW 3.4.3 Trigger enzyme
SW 3.4.3.1 Trigger enzymes of the PTS that control the activity of PRD-containing transcription factors
SW 3.4.3.2 Trigger enzymes that control gene expression by protein-protein interaction with transcription factors
SW 3.4.3.3 Trigger enzymes that act directly as transcription factors by binding DNA
SW 3.4.3.4 Trigger enzyme that acts by binding of a specific RNA element
SW 3.4.3.5 Trigger enzymes that control transcription in a yet unknown way
SW 3.4.4 RNA binding regulators
SW 3.4.5 Regulators of core metabolism
SW 3.4.6 Transition state regulators
SW 3.4.7 phosphorelay
SW 3.4.7.1 The kinases
SW 3.4.7.2 Proteins controlling the activity of the kinases
SW 3.4.7.3 The phosphotransferases
SW 3.4.7.4 The ultimate target
SW 3.4.7.5 Phosphatases controlling the phosphorelay
SW 3.4.7.6 Other protein controlling the activity of the phosphorelay
SW 3.4.8 Quorum sensing
SW 3.4.9 Other regulators
SW 3.5 Targets of second messengers
SW 3.5.1 Targets of c-di-AMP
SW 3.5.2 Targets of c-di-GMP
SW 3.5.3 Targets of (p)ppGpp
SW 3.5.4 Targets of ZTP
SW 4 Lifestyles
SW 4.1 Exponential and early post-exponential lifestyles
SW 4.1.1 Motility and chemotaxis
SW 4.1.1.1 Signal transduction in motility and chemotaxis
SW 4.1.1.1.1 Soluble signalling proteins
SW 4.1.1.1.2 Coupling proteins
SW 4.1.1.1.3 Soluble chemoreceptors
SW 4.1.1.1.4 Membrane-bound chemoreceptors
SW 4.1.1.1.5 Additional chemotaxis signal transduction and regulatory proteins
SW 4.1.1.2 Flagellar proteins
SW 4.1.1.3 Flagellar proteins/ based on similarity
SW 4.1.1.4 Motility and chemotaxis/ other
SW 4.1.2 Biofilm formation
SW 4.1.2.1 Matrix polysaccharide synthesis
SW 4.1.2.2 Amyloid protein synthesis, secretion and assembly
SW 4.1.2.3 Repellent surface layer
SW 4.1.2.4 Regulation
SW 4.1.2.5 Other proteins required for biofilm formation
SW 4.1.2.6 Other proteins required for efficient pellicle biofilm formation
SW 4.1.3 Genetic competence
SW 4.1.4 Swarming
SW 4.2 Sporulation
SW 4.2.1 Sporulation proteins
SW 4.2.1.1 Spore coat proteins
SW 4.2.1.1.1 Class I
SW 4.2.1.1.2 Class II
SW 4.2.1.1.3 Class III
SW 4.2.1.1.4 Class IV
SW 4.2.1.1.5 Class V
SW 4.2.1.1.7 Class VI
SW 4.2.1.1.8 Not yet assigned
SW 4.2.1.2 Spore coat protein/ based on similarity
SW 4.2.1.3 Small acid-soluble spore proteins
SW 4.2.1.4 Sporulation proteins/ other
SW 4.2.1.5 Newly identified sporulation proteins (based on transcription profiling)
SW 4.2.2 phosphorelay
SW 4.2.2.1 The kinases
SW 4.2.2.2 Proteins controlling the activity of the kinases
SW 4.2.2.3 The phosphotransferases
SW 4.2.2.4 The ultimate target
SW 4.2.2.5 Phosphatases controlling the phosphorelay
SW 4.2.2.6 Other protein controlling the activity of the phosphorelay
SW 4.2.3 Sporulation/ other
SW 4.2.4 Germination
SW 4.2.4.1 Germinant receptors
SW 4.2.4.2 Additional germination proteins
SW 4.2.5 Germination/ based on similarity
SW 4.3 Coping with stress
SW 4.3.1 General stress proteins (controlled by SigB)
SW 4.3.10 Resistance against other toxic compounds (nitric oxide, phenolic acids, flavonoids, oxalate)
SW 4.3.11 Resistance against toxic metals
SW 4.3.12 Resistance against toxic metals/ based on similarity
SW 4.3.13 Resistance against toxins/ antibiotics
SW 4.3.14 Resistance against toxins/ antibiotics/ based on similarity
SW 4.3.15 Biosynthesis of antibacterial compounds
SW 4.3.16 Biosynthesis of antibacterial compounds/ based on similarity
SW 4.3.17 Toxins, antitoxins and immunity against toxins
SW 4.3.17.1 Type 1 TA systems
SW 4.3.17.2 Type 2 TA systems
SW 4.3.18 Toxins, antitoxins and immunity against toxins/ based on similarity
SW 4.3.2 Cell envelope stress proteins (controlled by SigM, V, W, X, Y)
SW 4.3.3 Acid stress proteins (controlled by YvrI-YvrHa)
SW 4.3.4 Heat shock proteins
SW 4.3.5 Cold stress proteins
SW 4.3.6 Coping with hyper-osmotic stress
SW 4.3.7 Coping with hypo-osmotic stress
SW 4.3.8 Resistance against oxidative and electrophile stress
SW 4.3.9 Resistance against oxidative and electrophile stress/ based on similarity
SW 4.4 Lifestyles/ miscellaneous
SW 5 Prophages and mobile genetic elements
SW 5.1 Prophages
SW 5.1.1 PBSX prophage
SW 5.1.2 SP-beta prophage
SW 5.1.3 Skin element
SW 5.1.4 Prophage 1
SW 5.1.5 Prophage 3
SW 5.1.6 Phage-related functions
SW 5.2 Mobile genetic elements
SW 5.2.1 ICEBs1
SW 5.2.2 Additional genes
SW 6 Groups of genes
SW 6.1 Essential genes
SW 6.10 Pseudogenes
SW 6.11 Efp-dependent proteins
SW 6.12 Secreted proteins
SW 6.2 Membrane proteins
SW 6.3 GTP-binding proteins
SW 6.4 Phosphoproteins
SW 6.4.1 Phosphorylation on an Arg residue
SW 6.4.2 Phosphorylation on an Asp residue
SW 6.4.3 Phosphorylation on a Cys residue
SW 6.4.4 Phosphorylation on a His residue
SW 6.4.5 Phosphorylation on a Ser residue
SW 6.4.6 Phosphorylation on a Thr residue
SW 6.4.7 Phosphorylation on a Tyr residue
SW 6.4.8 Phosphorylation on either a Ser, Thr or Tyr residue
SW 6.4.9 Phosphoproteins / Other
SW 6.5 Universally conserved proteins
SW 6.6 Poorly characterized/ putative enzymes
SW 6.7 Proteins of unknown function
SW 6.8 Short peptides
SW 6.9 NcRNA
SW 6.9.1 6S RNA
SW 6.9.2 tmRNA
SW 6.9.3 Small cytoplasmatic RNA
SW 6.9.4 RNA component of RNase P
SW 6.9.5 Regulatory RNAs
SW 6.9.6 Antisense RNAs of toxin/antitoxin systems
SW 6.9.7 Small RNAs with unknown functions

bifL	bifM	bifN	yfiS
yfiU	sxzY	sxzZ	sxzA
yfhI	csbB	yfhO	ygaD
ssuB	ssuA	ssuC	yhcA
yhcE	yhcG	yhcH	yhcI
yhcJ	tcyP	glpF	pgcA
lytF	lytE	bcaP	yhdP
cueR	crcBA	crcBB	dat
nhaC	bmrC	bmrD	khtU
khtT	khtS	yhaQ	yhaP
trpP	ecsA	ecsB	hmoB
pbpF	gltT	yhfQ	bioY
yhjB	glcP	yhjP	yhjQ
mblK	wprA	yisQ	disA
yitG	fabF	appD	appF
appAn	appAc	appB	appC
oppA	oppB	oppC	oppD
oppF	yjbB	cwlQ	kefQ
manP	pdaC	yjkA	yjkB
exuM	exuT	yjnA	yjoB
xlyB	pghB	xepA	xlyA
pitB	steT	dppB	dppC
dppD	dppE	aeeB	eepC
ykfD	gdnC	gdnD	thiX
thiW	thiV	thiU	mgtE
ktrD	ykvT	pfeT	ptsG
ptsH	ptsI	pbpH	dapX
ltdD	dapH	dapI	yknU
yknV	skiY	skiZ	fruA
ykpA	mreBH	ktrC	ftsW
coaD	spoVV	ftsL	pbpB
spoVD	murE	mraY	murD
spoVE	murG	murB	divIB
ftsA	ftsZ	ylmD	sepF
divIVA	pyrP	cysP	tcaB
rsgA	plsX	ecfA	ecfAB
ecfT	uppS	rasP	asd
dapG	dapA	bcbE	rodZ
pbpX	dacA	cwlD	pghC
ebrB	ebrA	cwlC	xynP
pghL	dinK	alsT	yngB
dacC	yoeA	iseA	ggt
yoaB	ybaR	ybaS	eesA
feuC	feuB	czrA	feuA
walL	btr	nagZ	cwlS
mdtK	amiE	yodF	murP
ldcB	yodL	murR	murQ
pghZ	glmM	glmS	cwlP
blyA	sunT	dinF	ugtP
queP	ybcL	dynA	S834
pbuX	kdgT	gpsB	ypqE
ponA	tseB	skfE	dapB
skfF	ypbE	fmnP	dacB
ybxG	dacF	fur	spoIIM
mleN	mciZ	ybeC	artR
artQ	artP	bmr	glpT
yqiI	mntR	yqxL	yqgT
ltaSC	ybfG	pstBB	pstBA
pstA	pstC	pstS	pbpA
zur	unpK	floA	yqeW
spoIIP	cwlH	arsB	cwlA
gltP	gamP	gamA	gamR
yrkJ	blt	ybgF	yrdP
czcD	brnQ	azlD	azlC
glnT	murI	zinT	yraO
levG	levF	levE	levD
aapA	yrhG	gudP	yrrS
pbpI	yrrL	glnQ	glnH
glnM	glnP	yrvJ	spoVB
alaP	ycbK	minD	minC
mreD	mreC	mreB	maf
ycbN	ysoA	rcmE	cwlJ
zapA	cstA	araQ	araP
araN	pftB	pftA	lytT
lytS	lmrB	ytnM	tcyN
tcyM	tcyL	tcyK	tcyJ
braB	ezrA	refZ	murC
sftA	ytpQ	natR	natA
pbuO	ythQ	ythP	murJ
opuD	natB	rmgP	ytcQ
ytcP	yccK	msmE	msmF
msmG	bceB	bceA	ytrF
ytrE	ytrD	ytrC	ytrB
ytoA	ytnA	ytlA	ytlC
ytlD	ytkC	dps	mntD
mntC	cwlK	mntB	mntA
znuA	znuC	thiT	floT
nfeDB	znuB	ktrA	ktrB
lytG	yubA	kbfO	pbpD
nupO	nupP	nupQ	maeN
mrpA	mrpB	mrpC	mrpD
mrpE	mrpF	mrpG	niaP
yueF	yceJ	dhbF	dhbB
dhbE	dhbC	dhbA	besA
bioYB	opuAA	dapF	opuAB
opuAC	lytH	fisB	yunE
pucJ	pucK	frlP	frlM
frlN	frlO	sufC	metQ
metP	metN	lctP	mdtP
mdr	feuV	mrgA	yvrA
yvrB	yvrC	ycgH	yvrN
yvrO	fhuC	fhuG	fhuB
fhuD	ltaSP	yvgK	modA
modB	nhaK	cadA	copA
copZ	csoR	yvaD	yvaE
opuBC	opuBB	opuBA	opuCD
opuCC	opuCB	opuCA	araE
yvbW	yvfS	yvfR	ganP
ganS	lutP	epsK	putP
pbpE	aspP	psmA	psmB
mdxG	mdxF	mdxE	psdB
psdA	whiA	mgfK	cwlO
bmrA	nagA	nagBA	cypX
pchC	pchR	minJ	ftsX
ftsE	nasA	tagV	tagO
tuaH	tuaG	tuaF	tuaE
tuaD	tuaC	tuaB	tuaAc
tuaAn	lytC	lytB	yciB
lytA	tagU	mnaA	gtaB
ggaB	ggaA	tagH	tagG
tagF	tagE	tagD	tagA
tagB	tagC	zinU	lytD
tagT	pgdS	edmS	yckA
capA	capC	capB	rbsD
rbsA	rbsC	rbsB	yckB
chrB	chrA	mbl	pucI
amtB	bcrC	spoIID	murAA
racA	murAB	ywjA	narK
albC	albD	pbpG	rocC
sacP	nirC	rodA	tcyC
ywcD	vbfA	efeB	tcyB
efeM	efeU	tcyA	ywbA
sacX	dltA	dltB	dltC
dltD	dltE	licA	licC
licB	yxlG	yxlF	yxlA
cydD	cydC	cimH	msmX
dtpT	yxjC	nupG	citH
wapA	bglP	hutM	nupC
yxeO	yxeN	yclH	yxeM
yclI	frxB	tpeM	tpeL
iolF	csbC	gntP	ptsJ
liaM	liaL	pbtN	rocE
walJ	walI	walH	pbtO
walK	walR	pbtP	pbtQ
ycnB	yybL	yybK	yybJ
tetB	nocA	glcU	cutJ
cutR	mtlA	mtlF	pxpG
pbpC	amj	kimA	mntH
dctP	ydbJ	ydbK	fbpB
ydbO	ddlA	murF	alrA
cwlT	yabE	yddS	ydeG
ydeR	arsF	mneP	ydgF
ydgH	ydgK	ydhB	spoL
pbuE	gmuB	gmuA	gmuC
spoVG	glmU	ydiF	gutP
iolT	walM	gabP	mneS
pbuG	yabM	yecA	opuE
dagK	divIC	yesO	rhgP
rhgQ	lplA	lplB	lplC
hmoA	calJ	ltaSA	yfnC
mtrA	ettA	copO	ettM
yfmI	fecF	fecE	fecD
fecC	maeS	citM	nagP
ltaSB	yflA	treP	ftsH
yfkL	yfkF	chaA	pdaA
yfjQ	malP	yfiB	yfiC
yfiG

SW 1.1 Cell envelope and cell division

csbB	yfhO	pgcA	lytF
lytE	dat	pbpF	mblK
wprA	disA	fabF	cwlQ
pdaC	yjoB	xlyB	pghB
xepA	xlyA	aeeB	eepC
ykvT	pbpH	dapX	ltdD
dapH	dapI	mreBH	ftsW
coaD	ftsL	pbpB	spoVD
murE	mraY	murD	spoVE
murG	murB	divIB	ftsA
ftsZ	ylmD	sepF	divIVA
rsgA	plsX	uppS	rasP
asd	dapG	dapA	rodZ
pbpX	dacA	cwlD	pghC
cwlC	pghL	dinK	yngB
dacC	iseA	ggt	walL
nagZ	cwlS	amiE	murP
ldcB	yodL	murR	murQ
pghZ	glmM	glmS	cwlP
blyA	ugtP	dynA	gpsB
ponA	tseB	dapB	ypbE
dacB	dacF	spoIIM	mciZ
yqiI	yqgT	ltaSC	ybfG
pbpA	unpK	floA	spoIIP
cwlH	cwlA	gamP	gamA
gamR	murI	yrrS	pbpI
yrrL	yrvJ	spoVB	minD
minC	mreD	mreC	mreB
maf	ysoA	rcmE	cwlJ
zapA	lytT	lytS	ezrA
refZ	murC	sftA	murJ
ytkC	cwlK	floT	nfeDB
lytG	yubA	pbpD	yueF
dapF	lytH	fisB	ltaSP
pbpE	whiA	mgfK	cwlO
nagA	nagBA	minJ	ftsX
ftsE	tagV	tagO	tuaH
tuaG	tuaF	tuaE	tuaD
tuaC	tuaB	tuaAc	tuaAn
lytC	lytB	yciB	lytA
tagU	mnaA	gtaB	ggaB
ggaA	tagH	tagG	tagF
tagE	tagD	tagA	tagB
tagC	lytD	tagT	pgdS
edmS	capA	capC	capB
mbl	bcrC	spoIID	murAA
racA	murAB	pbpG	rodA
ywcD	dltA	dltB	dltC
dltD	dltE	wapA	walJ
walI	walH	walK	walR
nocA	pbpC	amj	ddlA
murF	alrA	cwlT	yabE
spoL	spoVG	glmU	walM
yabM	dagK	divIC	ltaSA
ltaSB	ftsH	pdaA

SW 1.1.1 Cell wall synthesis

csbB	yfhO	pgcA	lytE
dat	pbpF	pbpH	dapX
ltdD	dapH	dapI	pbpB
spoVD	murE	mraY	murD
spoVE	murG	murB	ylmD
uppS	asd	dapG	dapA
pbpX	dacA	dacC	ldcB
glmM	glmS	ponA	dapB
dacB	dacF	ltaSC	pbpA
unpK	murI	pbpI	spoVB
rcmE	murC	murJ	pbpD
dapF	ltaSP	pbpE	mgfK
cwlO	ftsX	ftsE	tagV
tagO	tuaH	tuaG	tuaF
tuaE	tuaD	tuaC	tuaB
tuaAc	tuaAn	yciB	tagU
mnaA	gtaB	ggaB	ggaA
tagH	tagG	tagF	tagE
tagD	tagA	tagB	tagC
tagT	bcrC	murAA	murAB
pbpG	ywcD	dltA	dltB
dltC	dltD	dltE	walJ
pbpC	amj	ddlA	murF
alrA	glmU	yabM	dagK
ltaSA	ltaSB

SW 1.1.1.1 Biosynthesis of peptidoglycan

dat	dapX	ltdD	dapH
dapI	murE	mraY	murD
spoVE	murG	murB	ylmD
asd	dapG	dapA	ldcB
glmM	glmS	dapB	murI
spoVB	rcmE	murC	murJ
dapF	mgfK	yciB	murAA
murAB	walJ	amj	ddlA
murF	alrA	glmU	yabM

SW 1.1.1.2 Autolytic activity required for peptidoglycan synthesis (cell elongation)

SW 1.1.1.3 Biosynthesis of lipoteichoic acid

csbB	yfhO	ltaSC	unpK
ltaSP	dagK	ltaSA	ltaSB

SW 1.1.1.4 Biosynthesis of teichoic acid

pgcA	tagO	mnaA	gtaB
ggaB	ggaA	tagH	tagG
tagF	tagE	tagD	tagA
tagB	tagC	ywcD	dltA
dltB	dltC	dltD	dltE

SW 1.1.1.5 Biosynthesis of teichuronic acid

tuaH	tuaG	tuaF	tuaE
tuaD	tuaC	tuaB	tuaAc
tuaAn

SW 1.1.1.6 Export of anionic polymers and attachment to peptidoglycan

tagV	tagU	tagH	tagG
tagT

SW 1.1.1.7 Penicillin-binding proteins

pbpF	pbpH	pbpB	spoVD
pbpX	dacA	dacC	ponA
dacB	dacF	pbpA	pbpI
pbpD	pbpE	pbpG	pbpC

SW 1.1.1.8 Biosynthesis of the carrier lipid undecaprenylphosphate

uppS

bcrC

SW 1.1.2 Cell shape

mreBH	rodZ	dynA	mreD
mreC	mreB	yubA	yueF
mgfK	mbl	rodA

SW 1.1.3 Cell wall degradation/ turnover

lytF	lytE	cwlQ	xlyB
xepA	xlyA	ykvT	iseA
walL	nagZ	cwlS	amiE
murP	murR	murQ	cwlP
blyA	yqiI	yqgT	cwlH
cwlA	gamP	gamA	gamR
lytT	lytS	ytkC	cwlK
lytG	lytH	pbpE	cwlO
nagA	nagBA	lytC	lytB
lytA	lytD	cwlT

SW 1.1.3.1 Autolysis

lytF	lytE	cwlQ	xlyB
xepA	xlyA	iseA	walL
cwlS	cwlP	blyA	cwlH
cwlA	lytT	lytS	cwlK
lytG	pbpE	cwlO	lytC
lytB	lytA	lytD	cwlT

SW 1.1.3.2 Autolysis/ based on similarity

ykvT

ytkC

SW 1.1.3.3 Utilization of cell wall components

nagZ	amiE	murP	murR
murQ	yqiI	gamP	gamA
gamR	nagA	nagBA

SW 1.1.3.4 Endopeptidases

lytF	lytE	cwlS	yqgT
cwlK	lytH	cwlO

SW 1.1.3.5 N-acetyl-β-D-glucosaminidases

lytG

lytD

SW 1.1.3.6 Cell wall degradation/ turnover/ Additional genes

yqiI

SW 1.1.4 Capsule biosynthesis and degradation

pghB	pghC	pghL	ggt
pghZ	pgdS	edmS	capA
capC	capB

SW 1.1.5 Cell wall/ other

wprA	pdaC	aeeB	eepC
rsgA	cwlD	cwlC	spoIIM
yqgT	spoIIP	yrrL	cwlJ
lytH	spoIID	wapA	walI
walH	walK	walR	walM
pdaA

SW 1.1.6 Cell wall/ other/ based on similarity

coaD	yngB	ybfG	yrvJ
yabE	spoL

SW 1.1.7 Membrane dynamics

fabF	dynA	floA	mreB
floT	nfeDB	fisB

SW 1.1.8 Cell division

mblK	disA	ftsW	ftsL
pbpB	divIB	ftsA	ftsZ
sepF	divIVA	plsX	rasP
dinK	yodL	ugtP	dynA
gpsB	tseB	ypbE	mciZ
yrrS	minD	minC	maf
ysoA	zapA	ezrA	refZ
sftA	whiA	minJ	racA
walJ	nocA	spoVG	divIC
ftsH

SW 1.1.8.1 The Min system

SW 1.1.8.2 Other genes

mblK	disA	ftsW	ftsL
pbpB	divIB	ftsA	ftsZ
sepF	divIVA	plsX	rasP
dinK	yodL	ugtP	dynA
gpsB	tseB	ypbE	mciZ
yrrS	maf	ysoA	zapA
ezrA	refZ	sftA	whiA
racA	walJ	nocA	spoVG
divIC	ftsH

SW 1.1.9 Cell division/ based on similarity

yjoB

SW 1.2 Transporters

bifL	bifM	bifN	yfiS
yfiU	sxzY	sxzZ	sxzA
yfhI	ygaD	ssuB	ssuA
ssuC	yhcA	yhcE	yhcG
yhcH	yhcI	yhcJ	tcyP
glpF	bcaP	crcBA	crcBB
bmrC	bmrD	khtU	khtT
yhaQ	yhaP	trpP	ecsA
ecsB	gltT	yhfQ	bioY
yhjB	glcP	yhjP	yisQ
yitG	appD	appF	appAn
appAc	appB	appC	oppA
oppB	oppC	oppD	oppF
yjbB	manP	yjkA	yjkB
exuM	exuT	yjnA	pitB
steT	dppB	dppC	dppD
dppE	ykfD	gdnC	gdnD
thiX	thiW	thiV	thiU
mgtE	ktrD	pfeT	ptsG
ptsH	ptsI	yknU	yknV
skiY	skiZ	fruA	ykpA
ktrC	spoVV	pyrP	cysP
ecfA	ecfAB	ecfT	bcbE
ebrB	ebrA	xynP	alsT
yoeA	yoaB	ybaR	ybaS
feuC	feuB	feuA	mdtK
yodF	murP	sunT	dinF
queP	ybcL	pbuX	kdgT
ypqE	skfE	skfF	fmnP
ybxG	mleN	ybeC	artR
artQ	artP	bmr	glpT
yqxL	pstBB	pstBA	pstA
pstC	pstS	yqeW	arsB
gltP	gamP	yrkJ	blt
ybgF	czcD	brnQ	azlD
azlC	glnT	yraO	levG
levF	levE	levD	aapA
yrhG	gudP	glnQ	glnH
glnM	glnP	alaP	ycbK
ycbN	cstA	araQ	araP
araN	pftB	pftA	lmrB
ytnM	tcyN	tcyM	tcyL
tcyK	tcyJ	braB	natA
pbuO	ythQ	ythP	opuD
natB	rmgP	ytcQ	ytcP
yccK	msmE	msmF	msmG
bceB	bceA	ytrF	ytrE
ytrD	ytrC	ytrB	ytnA
ytlA	ytlC	ytlD	mntD
mntC	mntB	mntA	znuA
znuC	thiT	znuB	ktrA
ktrB	nupO	nupP	nupQ
maeN	mrpA	mrpB	mrpC
mrpD	mrpE	mrpF	mrpG
niaP	yceJ	bioYB	opuAA
opuAB	opuAC	yunE	pucJ
pucK	frlP	frlM	frlN
frlO	sufC	metQ	metP
metN	lctP	mdtP	mdr
feuV	yvrA	yvrB	yvrC
ycgH	yvrN	yvrO	fhuC
fhuG	fhuB	fhuD	yvgK
modA	modB	nhaK	cadA
copA	copZ	yvaD	yvaE
opuBC	opuBB	opuBA	opuCD
opuCC	opuCB	opuCA	araE
yvbW	yvfS	yvfR	ganP
ganS	lutP	epsK	putP
aspP	psmA	psmB	mdxG
mdxF	mdxE	psdB	psdA
bmrA	ftsX	ftsE	nasA
tagH	tagG	yckA	rbsD
rbsA	rbsC	rbsB	yckB
chrB	chrA	pucI	amtB
ywjA	narK	albC	albD
rocC	sacP	nirC	tcyC
vbfA	tcyB	efeM	efeU
tcyA	ywbA	sacX	dltB
licA	licC	licB	yxlG
yxlF	yxlA	cydD	cydC
cimH	msmX	dtpT	yxjC
nupG	citH	bglP	hutM
nupC	yxeO	yxeN	yclH
yxeM	yclI	frxB	tpeM
tpeL	iolF	csbC	gntP
ptsJ	liaM	liaL	pbtN
rocE	pbtO	pbtP	pbtQ
ycnB	yybL	yybK	yybJ
tetB	glcU	cutJ	mtlA
mtlF	pxpG	kimA	mntH
dctP	ydbJ	ydbK	ydbO
yddS	ydeG	ydeR	arsF
mneP	ydgF	ydgH	ydgK
ydhB	pbuE	gmuB	gmuA
gmuC	ydiF	gutP	iolT
gabP	mneS	pbuG	yecA
opuE	yesO	rhgP	rhgQ
lplA	lplB	lplC	yfnC
mtrA	ettA	copO	ettM
yfmI	fecF	fecE	fecD
fecC	maeS	citM	nagP
yflA	treP	yfkL	yfkF
chaA	malP	yfiB	yfiC
yfiG

SW 1.2.1 ABC transporters

bifL	bifM	bifN	sxzY
sxzZ	sxzA	ygaD	ssuB
ssuA	ssuC	yhcE	yhcG
yhcH	yhcI	yhcJ	bmrC
bmrD	yhaQ	yhaP	ecsA
ecsB	yhfQ	yhjP	appD
appF	appAn	appAc	appB
appC	oppA	oppB	oppC
oppD	oppF	yjkA	yjkB
dppB	dppC	dppD	dppE
ykfD	yknU	yknV	skiY
skiZ	ykpA	feuC	feuB
feuA	sunT	skfE	skfF
artR	artQ	artP	pstBB
pstBA	pstA	pstC	pstS
glnQ	glnH	glnM	glnP
ycbN	araQ	araP	araN
tcyN	tcyM	tcyL	tcyK
tcyJ	natA	ythQ	ythP
natB	rmgP	ytcQ	ytcP
msmE	msmF	msmG	bceB
bceA	ytrF	ytrE	ytrD
ytrC	ytrB	ytlA	ytlC
ytlD	mntD	mntC	mntB
mntA	znuA	znuC	znuB
nupO	nupP	nupQ	opuAA
opuAB	opuAC	frlP	frlM
frlN	frlO	sufC	metQ
metP	metN	feuV	yvrA
yvrB	yvrC	yvrN	yvrO
fhuC	fhuG	fhuB	fhuD
modA	modB	opuBC	opuBB
opuBA	opuCD	opuCC	opuCB
opuCA	yvfS	yvfR	ganP
ganS	mdxG	mdxF	mdxE
psdB	psdA	bmrA	ftsX
ftsE	tagH	tagG	yckA
rbsD	rbsA	rbsC	rbsB
yckB	ywjA	albC	albD
tcyC	tcyB	tcyA	yxlG
yxlF	cydD	cydC	msmX
yxeO	yxeN	yclH	yxeM
yclI	frxB	tpeM	tpeL
liaM	liaL	pbtN	pbtO
pbtP	pbtQ	yybL	yybK
yybJ	ydbJ	ydbK	ydiF
yesO	rhgP	rhgQ	lplA
lplB	lplC	ettA	ettM
fecF	fecE	fecD	fecC
yfiB	yfiC

SW 1.2.1.1 Importers

sxzY	sxzZ	sxzA	ssuB
ssuA	ssuC	yhfQ	appD
appF	appAn	appAc	appB
appC	oppA	oppB	oppC
oppD	oppF	dppB	dppC
dppD	dppE	ykfD	feuC
feuB	feuA	artR	artQ
artP	pstBB	pstBA	pstA
pstC	pstS	glnQ	glnH
glnM	glnP	araQ	araP
araN	tcyN	tcyM	tcyL
tcyK	tcyJ	rmgP	ytcQ
ytcP	msmE	msmF	msmG
mntD	mntC	mntB	mntA
znuA	znuC	znuB	nupO
nupP	nupQ	opuAA	opuAB
opuAC	frlP	frlM	frlN
frlO	metQ	metP	metN
feuV	yvrA	yvrB	yvrC
fhuC	fhuG	fhuB	fhuD
modA	modB	opuBC	opuBB
opuBA	opuCD	opuCC	opuCB
opuCA	ganP	ganS	mdxG
mdxF	mdxE	rbsD	rbsA
rbsC	rbsB	tcyC	tcyB
tcyA	msmX	yxeO	yxeN
yxeM	frxB	pbtN	pbtO
pbtP	pbtQ	yesO	rhgP
rhgQ	fecF	fecE	fecD
fecC

SW 1.2.1.1.1 Uptake of carbon sources

araQ	araP	araN	rmgP
ytcQ	ytcP	msmE	msmF
msmG	nupO	nupP	nupQ
frlP	frlM	frlN	frlO
ganP	ganS	mdxG	mdxF
mdxE	rbsD	rbsA	rbsC
rbsB	msmX	yesO	rhgP
rhgQ

SW 1.2.1.1.2 Uptake of amino acids

artR	artQ	artP	glnQ
glnH	glnM	glnP	tcyN
tcyM	tcyL	tcyK	tcyJ
metQ	metP	metN	tcyC
tcyB	tcyA	yxeO	yxeN
yxeM

SW 1.2.1.1.3 Uptake of peptides

appD	appF	appAn	appAc
appB	appC	oppA	oppB
oppC	oppD	oppF	dppB
dppC	dppD	dppE	ykfD

SW 1.2.1.1.4 Uptake of compatible solutes for osmoprotection

opuAA	opuAB	opuAC	opuBC
opuBB	opuBA	opuCD	opuCC
opuCB	opuCA

SW 1.2.1.1.5 Uptake of iron/ siderophores

sxzY	sxzZ	sxzA	yhfQ
feuC	feuB	feuA	feuV
fhuC	fhuG	fhuB	fhuD
frxB	pbtN	pbtO	pbtP
pbtQ	fecF	fecE	fecD
fecC

SW 1.2.1.1.6 Uptake of ions

ssuB	ssuA	ssuC	pstBB
pstBA	pstA	pstC	pstS
mntD	mntC	mntB	mntA
znuA	znuC	znuB	modA
modB

SW 1.2.1.1.7 Uptake of cofactors

bifL	bifM	bifN	ygaD
yhcE	yhcG	yhcH	yhcI
bmrC	bmrD	yhaQ	yhaP
yknU	yknV	skiY	skiZ
sunT	skfE	skfF	ycbN
natA	ythQ	ythP	natB
bceB	bceA	yvrN	yvrO
yvfS	yvfR	psdB	psdA
bmrA	tagH	tagG	ywjA
albC	albD	yxlG	yxlF
yclH	yclI	tpeM	tpeL
liaM	liaL	yybL	yybK
yybJ	ydbJ	ydbK	yfiB
yfiC

SW 1.2.1.2.1 Efflux of antibiotics

bifL	bifM	bifN	bmrC
bmrD	bmrA

SW 1.2.1.2.2 Export of antibiotic substances

sunT

albC

albD

SW 1.2.1.2.3 Export of peptides

skiY	skiZ	skfE	skfF
bceB	bceA	psdB	psdA
yxlG	yxlF	tpeM	tpeL
liaM	liaL

SW 1.2.1.2.4 Export of cell wall components

tagH

tagG

SW 1.2.1.2.5 Export of ions

natA

natB

SW 1.2.1.2.6 Exporters of unknown function

ygaD	yhcE	yhcG	yhcH
yhcI	yhaQ	yhaP	yknU
yknV	ycbN	ythQ	ythP
yvrN	yvrO	yvfS	yvfR
ywjA	yclH	yclI	yybL
yybK	yybJ	ydbJ	ydbK
yfiB	yfiC

SW 1.2.1.3 Regulatory ABC transporters

bmrC	bmrD	ecsA	ecsB
sufC	ftsX	ftsE	cydD
cydC

SW 1.2.1.4 Unknown ABC transporters

yhcJ	yhjP	yjkA	yjkB
ykpA	ytrF	ytrE	ytrD
ytrC	ytrB	ytlA	ytlC
ytlD	yckA	yckB	ydiF
lplA	lplB	lplC	ettA
ettM

SW 1.2.2 Phosphotransferase system

manP	ptsG	ptsH	ptsI
fruA	murP	ypqE	gamP
levG	levF	levE	levD
sacP	ywbA	sacX	licA
licC	licB	bglP	ptsJ
mtlA	mtlF	gmuB	gmuA
gmuC	nagP	treP	malP

SW 1.2.2.1 General PTS proteins

ptsH

ptsI

SW 1.2.2.2 Sugar specific PTS proteins

manP	ptsG	fruA	murP
ypqE	gamP	levG	levF
levE	levD	sacP	ywbA
sacX	licA	licC	licB
bglP	ptsJ	mtlA	mtlF
gmuB	gmuA	gmuC	nagP
treP	malP

SW 1.2.3 ECF transporter

trpP	bioY	thiX	thiW
thiV	thiU	ecfA	ecfAB
ecfT	fmnP	thiT	bioYB

SW 1.2.3.1 The general components of the ECF transporters

ecfA

ecfAB

ecfT

SW 1.2.3.2 The substrate-specific S components of the ECF transporters

trpP	bioY	fmnP	thiT
bioYB

SW 1.2.3.3 Class I ECF transporter

SW 1.2.4 Transporters/ other

yfiS	yfiU	yfhI	yhcA
tcyP	glpF	bcaP	crcBA
crcBB	khtU	khtT	gltT
yhjB	glcP	yisQ	yitG
yjbB	exuM	exuT	yjnA
pitB	steT	gdnC	gdnD
mgtE	ktrD	pfeT	ktrC
spoVV	pyrP	cysP	bcbE
ebrB	ebrA	xynP	alsT
yoeA	yoaB	ybaR	ybaS
mdtK	yodF	dinF	queP
ybcL	pbuX	kdgT	ybxG
mleN	ybeC	bmr	glpT
yqxL	yqeW	arsB	gltP
yrkJ	blt	ybgF	czcD
brnQ	azlD	azlC	glnT
yraO	aapA	yrhG	gudP
alaP	ycbK	cstA	pftB
pftA	lmrB	ytnM	braB
pbuO	opuD	yccK	ytnA
ktrA	ktrB	maeN	mrpA
mrpB	mrpC	mrpD	mrpE
mrpF	mrpG	niaP	yceJ
yunE	pucJ	pucK	lctP
mdtP	mdr	ycgH	yvgK
nhaK	cadA	copA	copZ
yvaD	yvaE	araE	yvbW
lutP	epsK	putP	aspP
psmA	psmB	nasA	chrB
chrA	pucI	amtB	narK
rocC	nirC	vbfA	efeM
efeU	dltB	yxlA	cimH
dtpT	yxjC	nupG	citH
hutM	nupC	iolF	csbC
gntP	rocE	ycnB	tetB
glcU	cutJ	pxpG	kimA
mntH	dctP	ydbO	yddS
ydeG	ydeR	arsF	mneP
ydgF	ydgH	ydgK	ydhB
pbuE	gutP	iolT	gabP
mneS	pbuG	yecA	opuE
yfnC	mtrA	copO	yfmI
maeS	citM	yflA	yfkL
yfkF	chaA	yfiG

SW 1.2.4.1 Amino acid transporters

tcyP	bcaP	gltT	steT
cysP	alsT	yodF	ybxG
gltP	ybgF	brnQ	azlD
azlC	glnT	aapA	alaP
braB	ytnA	yvbW	putP
aspP	rocC	vbfA	hutM
rocE	ydgF	opuE

SW 1.2.4.1.1 Solute:sodium symporter family

gltT	alsT	yodF	glnT
putP	vbfA	opuE

SW 1.2.4.1.2 Other amino acid transporters

tcyP	bcaP	steT	cysP
ybxG	gltP	ybgF	brnQ
azlD	azlC	aapA	alaP
braB	ytnA	yvbW	aspP
rocC	hutM	rocE	ydgF

SW 1.2.4.10 Siderophore exporters

bcbE

SW 1.2.4.11 Other exporters

yhcA	crcBA	crcBB	gdnC
gdnD	bmr	blt	mdr
epsK	chrB	chrA	narK
ycnB	mneS

SW 1.2.4.12 Other transporters

yfiS	yfiU	yfhI	yhjB
yitG	yjbB	yjnA	spoVV
ybaS	queP	ybcL	ybeC
yrkJ	ycbK	cstA	lmrB
ytnM	yccK	yceJ	yunE
ycgH	yvgK	dltB	csbC
tetB	pxpG	ydbO	yddS
ydeG	ydeR	ydgH	ydgK
ydhB	yecA	yfnC	mtrA
copO	yfmI	yflA	yfkL
yfkF

SW 1.2.4.13 Metal ion exporters

mneP

mneS

SW 1.2.4.14 Multidrug exporters

ebrB	ebrA	yvaD	yvaE
psmA	psmB

SW 1.2.4.15 Multidrug exporters/ based on homology

SW 1.2.4.2 Peptide transporter

dtpT

SW 1.2.4.3 Carbohydrate transporter

glpF	glcP	exuM	exuT
xynP	kdgT	glpT	gudP
mdtP	araE	iolF	gntP
glcU	gutP	iolT	yfiG

SW 1.2.4.4 Transporter for organic acids

yoaB	ybaR	mleN	yraO
yrhG	pftB	pftA	maeN
lctP	lutP	cimH	yxjC
citH	dctP	gabP	maeS
citM

SW 1.2.4.5 Metal ion transporter

khtU	khtT	mgtE	ktrD
pfeT	ktrC	yqxL	arsB
czcD	ktrA	ktrB	mrpA
mrpB	mrpC	mrpD	mrpE
mrpF	mrpG	nhaK	cadA
copA	copZ	efeM	efeU
cutJ	kimA	mntH	arsF
chaA

SW 1.2.4.6 Nucleotide/ nucleoside transporter

pyrP	pbuX	pbuO	pucJ
pucK	pucI	yxlA	nupG
nupC	pbuE	pbuG

SW 1.2.4.7 Transporter for cofactors

niaP

SW 1.2.4.8 Uptake of other small ions

pitB	yqeW	nasA	amtB
nirC

SW 1.2.4.9 Uptake of compatible solutes

opuD

opuE

SW 1.3 Homeostasis

sxzY	sxzZ	sxzA	yhdP
cueR	nhaC	khtU	khtT
khtS	hmoB	yhfQ	yhjQ
kefQ	mgtE	ktrD	ktrC
tcaB	bcbE	eesA	feuC
feuB	czrA	feuA	btr
S834	fur	mntR	yqxL
zur	yrdP	czcD	zinT
ytpQ	natR	natA	natB
ytoA	dps	mntD	mntC
mntB	mntA	znuA	znuC
znuB	ktrA	ktrB	kbfO
mrpA	mrpB	mrpC	mrpD
mrpE	mrpF	mrpG	dhbF
dhbB	dhbE	dhbC	dhbA
besA	feuV	mrgA	fhuC
fhuG	fhuB	fhuD	modA
modB	nhaK	copA	copZ
csoR	cypX	pchC	pchR
zinU	efeB	efeM	efeU
frxB	pbtN	pbtO	pbtP
pbtQ	cutJ	cutR	kimA
mntH	fbpB	mneP	mneS
hmoA	calJ	fecF	fecE
fecD	fecC	citM	chaA
yfjQ

SW 1.3.1 Metal ion homeostasis (K, Na, Ca, Mg)

yhdP	nhaC	khtU	khtT
khtS	kefQ	mgtE	ktrD
ktrC	tcaB	yqxL	natR
natA	natB	ktrA	ktrB
kbfO	mrpA	mrpB	mrpC
mrpD	mrpE	mrpF	mrpG
nhaK	kimA	calJ	citM
chaA	yfjQ

SW 1.3.1.1 Magnesium uptake/ efflux

SW 1.3.1.2 Sodium uptake/ export

nhaC	natR	natA	natB
mrpA	mrpB	mrpC	mrpD
mrpE	mrpF	mrpG	nhaK

SW 1.3.1.3 Potassium uptake/ export

khtU	khtT	khtS	kefQ
ktrD	ktrC	ktrA	ktrB
kbfO	kimA

SW 1.3.1.4 Metal ion homeostasis/ Other

SW 1.3.2 Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)

cueR	yhjQ	czrA	mntR
zur	yrdP	czcD	zinT
mntD	mntC	mntB	mntA
znuA	znuC	znuB	modA
modB	copA	copZ	csoR
zinU	cutJ	cutR	mntH
mneP	mneS

SW 1.3.2.1 Copper

cueR	yhjQ	copA	copZ
csoR	cutJ	cutR

SW 1.3.2.2 Manganese

mntR	mntD	mntC	mntB
mntA	mntH	mneP	mneS

SW 1.3.2.3 Zinc

czrA	zur	czcD	zinT
znuA	znuC	znuB	zinU

SW 1.3.2.4 Trace metals/ Other

yrdP

modA

modB

SW 1.3.3 Acquisition of iron

sxzY	sxzZ	sxzA	hmoB
yhfQ	bcbE	eesA	feuC
feuB	feuA	btr	S834
fur	ytpQ	dps	dhbF
dhbB	dhbE	dhbC	dhbA
besA	feuV	mrgA	fhuC
fhuG	fhuB	fhuD	cypX
pchC	pchR	efeB	efeM
efeU	frxB	pbtN	pbtO
pbtP	pbtQ	fbpB	hmoA
fecF	fecE	fecD	fecC

SW 1.3.3.1 ABC transporters for the uptake of iron/ siderophores

sxzY	sxzZ	sxzA	yhfQ
feuC	feuB	feuA	feuV
fhuC	fhuG	fhuB	fhuD
frxB	pbtN	pbtO	pbtP
pbtQ	fecF	fecE	fecD
fecC

SW 1.3.3.2 Elemental iron transport system

efeB

efeM

efeU

SW 1.3.3.3 Acquisition of iron / Other

hmoB	yhfQ	bcbE	eesA
btr	S834	fur	ytpQ
dps	dhbF	dhbB	dhbE
dhbC	dhbA	besA	mrgA
cypX	pchC	pchR	fbpB
hmoA

SW 1.3.4 Acquisition of iron/ based on similarity

ytoA

SW 1.3.5 PH homeostasis

nhaC

SW 2 Metabolism

pabB	estB	pabA	mprF
sxzY	sxzZ	sxzA	pabC
folP	csbB	yfhO	fabL
folB	gsaB	folK	thiC
senS	ssuB	ssuA	ssuC
ssuD	yhcA	dgcK	tcyP
mncR	glpP	glpF	glpK
glpD	pgcA	phoA	bcaP
akrN	plsC	yhdW	dat
hemZ	trpP	serC	hmoB
hemE	hemH	hemY	fabHB
gltT	lplJ	lcfB	aprE
yhfQ	phoE	bioY	yhfW
ntdC	ntdB	ntdA	ntdR
radA	asnO	farP	iolQ
iolX	disA	yisZ	yitA
yitB	samT	ispD	nprB
fakBB	ribZC	yitW	ispF
argC	argJ	argB	argD
carA	carB	argF	fabHA
fabF	appD	appF	appB
appC	cysE	oppA	oppB
oppC	oppD	oppF	relP
ppnKA	tenA	tenI	thiO
thiS	thiG	thiF	thiD
fabI	metI	metC	manR
manP	manA	ctaO	yjgC
cypE	ndh	uxaC	exuM
yjmC	yjmD	uxuA	uxuB
exuT	exuR	uxaB	uxaA
pitB	proCC	dppA	dppB
dppC	dppD	dppE	ykfD
pgl	hmpA	purU	proB
proA	guaN	metE	ispA
thiX	thiW	thiV	thiU
tnrA	dgcW	mtnA	mtnK
mtnU	mtnE	mtnW	mtnX
mtnB	mtnD	pfeT	papB
glcT	ptsG	dapX	ltdD
fadH	ykuG	ccpC	fldN
fldP	dapH	dapI	ahpA
mobA	moeB	moeA	mobB
moaE	moaD	fruR	fruK
fruA	adeC	defB	pdhA
pdhB	pdhC	pdhD	rgpA
speA	nprE	glsB	pycA
ctaA	ctaB	ctaC	ctaD
ctaE	ctaF	ctaG	panE
bshC	murE	mraY	murD
spoVE	guaB	murG	murB
bpr	thiQ	ylmD	adk
pyrR	pyrP	pyrB	pyrC
pyrAA	pyrAB	pyrK	pyrD
pyrF	pyrE	cysH	cysP
sat	cysC	sumT	sirB
sirC	gmk	coaBC	rsgA
rpe	thiN	yloV	sdaAB
sdaAA	fapR	plsX	fabD
fabG	acpA	sucC	sucD
pyrH	uppS	cdsA	dxr
ribC	spoVFA	spoVFB	asd
dapG	dapA	bcbE	pgsA
tdh	kbl	pksB	pksC
pksD	pksE	acpK	pksF
pksG	pksH	pksI	pksJ
pksL	pksM	pksN	pksR
pksS	aprX	nrdI	nrdE
nrdF	glnR	glnA	xynP
xynB	xylR	xylA	xylB
dutA	thyA	pdxS	tktA
ccdA	citB	yneN	sspT
plsY	alsT	eglS	xynC
xynD	ldeE	ldeF	ldeG
lgeHB	ldeHA	ldeI	ldeJ
ppsE	ppsD	ppsC	ppsB
ppsA	galM	gltB	gltA
gltC	proJ	proH	yoaB
yoaD	yoaE	pelB	yoaV
ybaR	xynA	eesA	feuC
feuB	feuA	desE	desK
desR	btr	odhB	odhA
yojN	cdaS	bshBB	pdxT
noxC	yodF	murP	ldcB
deoD	murR	murQ	phyC
dutB	yosR	nrdEB	nrdEB
cdaA	cdaR	glmM	glmS
sunS	sunT	sunA	ndhF
scuA	ilvA	dfrA	thyB
ilvD	hdhQ	metAA	ugtP
S834	bpsB	bpsA	pbuX
xpt	ybcM	kdgT	kdgA
kdgK	kdgR	kduI	kduD
aspB	panD	panC	panB
birA	bshA	bshBA	mgsA
dapB	qcrC	qcrB	qcrA
aroA	tyrA	hisC	trpA
trpB	trpF	trpC	trpD
trpE	aroH	aroB	aroF
ndk	hepT	menG	hepS
mtrB	folEA	gpsA	fni
cmk	gudB	dck	fer
fmnP	serA	aroC	resE
resD	resC	resB	resA
ribH	ribBA	ribE	ribD
lysA	pupG	deoB	fur
mleA	mleN	ansB	ansA
ansR	nudF	cypC	coaA
proI	dgk	zwf	gndA
artR	artQ	artP	glpQA
bkdB	bkdAB	bkdAA	lpdV
buk	bcd	ptb	glpT
bkdR	mmgF	mmgE	mmgD
mmgC	mmgB	mmgA	glpQ
argR	dxs	ispA	yqhY
accC	accB	papA	lipM
gcvPB	gcvPA	gcvT	ltaSC
glcK	pstBB	pstBA	pstA
pstC	pstS	ispG	ispH
cccA	purT	ppsR	ccpN
mpr	cdd	unpK	pgpH
yqeW	cesB	hemN	pssA
nadD	aroE	psd	nucB
gamP	gamA	gamR	yrkL
ilvE	bltR	blt	bltD
ybgF	brnQ	azlD	azlC
azlB	ybgG	cypA	glnT
murI	yraO	glsA	csn
glnJ	sacC	glnL	levG
levF	levE	levD	levR
kdgD	cypB	bscR	gucD
mccB	gudP	mccA	mtnN
udk	gudD	glnQ	garR
glnH	glnM	glnP	garD
cymR	rsh	apt	spoVB
alaP	rtpA	nadA	nadC
nadB	nifS	niaR	pheA
thrR	folC	hemL	hemB
hemD	hemC	hemX	hemA
leuD	leuC	leuB	leuA
ilvC	ilvH	ilvB	rcmE
sdhB	sdhA	sdhC	lysCA
trxA	abfB	etfA	etfB
fadB	fadR	lcfA	cstA
abfA	araQ	araP	araN
araD	araB	araA	phoD
abnA	frvX	pftB	tatAD
pftA	ysaA	tatCD	speD
gapB	coaE	phoR	phoP
mdh	icd	citZ	pyk
pfkA	accA	accD	maeB
sndA	ribR	cmoJ	cmoI
cmoO	tcyN	tcyM	tcyL
tcyK	tcyJ	snaA	ascR
argH	ansZ	argG	moaB
ackA	estA	ppnKB	braB
hisK	dgcP	acsA	acuA
acuC	aroX	murC	ytpQ
ytpP	maeC	amyX	pbuO
murJ	rmgQ	rmgP	ytcQ
ytcP	bioI	bioB	bioD
bioFC	bioK	bioW	msmR
msmE	msmF	msmG	melA
ytoA	ytnA	asnB	metK
pckA	dps	luxS	ythA
ythB	menC	menE	menB
menH	menD	menF	glgP
glgA	glgD	glgC	glgB
thiT	gbsB	gbsA	gbsR
iolU	rhaA	rhaM	rhaB
rhaR	rhaE	yugT	pgi
patB	maeL	maeM	nupN
nupO	nupP	nupQ	maeN
pdeH	pncB	niaP	pncA
adeR	ald	dhbF	dhbB
dhbE	dhbC	dhbA	besA
trxBB	guaC	paiA	sufA
dapF	yutK	yutJ	thrB
thrC	hom	lipA	pucH
pucR	pucJ	pucK	pucL
pucM	pucE	pucD	pucC
pucB	pucA	pucG	pucF
bsnA	frlP	frlR	frlD
frlM	frlN	frlO	frlB
amyE	sufB	sufU	sufS
sufD	sufC	lctE	metQ
metP	metN	yusE	gcvH
lctP	fadE	fadA	fadN
putM	feuV	mrgA	fumC
yvqK	yvrA	yvrB	yvrC
fhuC	fhuG	fhuB	fhuD
lysP	ltaSP	nadE	cysI
cysJ	iolW	rnr	aroK
eno	pgm	tpiA	pgk
gapA	cggR	araE	araR
cyeB	lutC	lutB	lutA
ganB	ganA	ganQ	ganP
ganS	ganR	lutR	putB
lutP	putC	putP	pnbA
sacB	levB	aspP	cotR
mdxM	putR	mdxL	mdxK
mdxG	mdxF	mdxE	mdxD
mdxR	mgfK	trxB	hisIE
hisF	hisA	hisH	hisB
hisD	hisG	ffoR	pelC
nagA	nagBA	nasF	nagR
cypX	pchC	nasE	nasD
cccB	nasC	nasB	nasA
fakBA	tagO	tuaH	folEB
tuaG	tuaF	tuaE	tuaD
tuaC	tuaB	tuaAc	tuaAn
yciB	mnaA	gtaB	ggaB
ggaA	tagH	tagG	tagF
tagE	tagD	tagA	tagB
tagC	pmiA	ribZB	rbsR
rbsK	rbsD	rbsA	rbsC
rbsB	ywrO	alsD	alsS
alsR	bglC	fabZ	pucI
amtB	glnK	bcrC	clsA
ureC	ureB	ureA	moaA
murAA	atpC	atpD	atpG
atpA	atpH	atpF	atpE
atpB	atpI	upp	glyA
rpiB	maeA	tdk	srfAA
glpX	murAB	tal	fbaA
pyrG	srfAB	acdA	fadF
clsB	clsC	narI	narJ
narH	narG	arfM	fnr
narK	srfAC	sboA	sboX
albA	albB	albC	albD
albE	albF	albG	srfAD
speB	speE	lipL	cysL
pta	hemQ	bacG	bacF
bacE	bacD	bacC	bacB
bacA	rocC	rocB	rocA
rocG	spsL	spsK	spsJ
spsI	sfpAc	sfpAn	pdxK
sacA	sacP	nirC	sacT
vpr	nfrAA	qoxD	qoxC
qoxB	qoxA	tcyC	galT
galK	ywcD	efeB	tcyB
efeM	efeU	thiE	thiM
tcyA	epr	sacX	sacY
relQ	menA	dltA	dltB
dltC	dltD	dltE	ilvK
licH	licA	licC	licB
licR	yxlA	cydD	cydC
cydB	cydA	cimH	msmX
galE	pepT	yxjH	dtpT
yxjG	scoB	scoA	nupG
citH	bglS	licT	bglH
bglP	abnB	hutP	hutH
hutU	hutI	hutG	hutM
pdp	nupC	deoC	deoR
sndB	yxeO	yxeN	yxeM
snaB	yxeK	frxB	iolJ
iolI	iolH	iolG	iolF
iolE	iolD	iolC	iolB
iolA	iolR	iolS	asnH
gntR	gntK	gntP	gntZ
bglA	fbp	thrD	pbtN
argI	rocE	rocD	rocR
walJ	pbtO	purA	pbtP
gdpP	pbtQ	ppaC	ycnB
nfrAB	maa	yyaE	gabR
gabT	gabD	tmk	mtlA
mtlF	mtlD	ycsD	ribZ
pxpA	pxpG	pxpB	pxpC
lipC	mtlR	lyxE	amj
dctB	dctS	dctR	dctP
fbpB	ydbP	ddlA	murF
acpS	alrA	ydeQ	cesA
ydfQ	ispE	purR	phoB
fra	pbuE	gmuB	ridA
gmuA	gmuC	gmuD	gmuR
gmuE	gmuF	gmuG	thiL
glmU	moaC	rex	prs
gutR	gutB	gutP	ydjE
iolT	bdhA	gabP	guaA
pbuG	yabM	purE	purK
purB	purC	purS	purQ
purL	purF	purM	purN
purH	purD	pcrB	sapB
dagK	yesO	rhgP	rhgQ
rhgH	rhgR	rhgT	yesV
rhgW	rhgX	yesY	rhgZ
yetA	lplD	hmoA	cypD
ltaSA	mtrA	fecF	fecE
fecD	fecC	pelA	maeS
citS	citT	citM	nosA
yflK	nagP	hprT	ltaSB
treP	treA	treR	hypO
yfkN	coaX	acoA	acoB
acoC	acoL	acoR	malA
malR	cysK	malP	catD
catE	yfiG

SW 2.1 Electron transport and ATP synthesis

yhfW	yjgC	cypE	ndh
hmpA	fldN	fldP	ahpA
ctaC	ctaD	ctaE	ctaF
ctaG	sucC	sucD	ccdA
yneN	sspT	yoaE	yojN
noxC	yosR	ndhF	scuA
qcrC	qcrB	qcrA	fer
resE	resD	resC	resB
resA	cypC	cccA	yrkL
cypA	cypB	bscR	trxA
etfA	etfB	ackA	ytpP
ythA	ythB	trxBB	yutJ
yusE	pgk	trxB	ffoR
nasF	cypX	nasE	nasD
cccB	ywrO	atpC	atpD
atpG	atpA	atpH	atpF
atpE	atpB	atpI	narI
narJ	narH	narG	arfM
fnr	narK	nirC	nfrAA
qoxD	qoxC	qoxB	qoxA
cydD	cydC	cydB	cydA
nfrAB	yyaE	ydbP	ydeQ
ydfQ	rex	cypD	hypO

SW 2.1.1 Regulators of electron transport

resE	resD	arfM	fnr
rex

SW 2.1.2 Respiration

ndh	ctaC	ctaD	ctaE
ctaF	ctaG	ccdA	yojN
ndhF	scuA	qcrC	qcrB
qcrA	resC	resB	resA
cccA	ythA	ythB	nasF
nasE	nasD	cccB	narI
narJ	narH	narG	narK
nirC	qoxD	qoxC	qoxB
qoxA	cydD	cydC	cydB
cydA

SW 2.1.2.1 Terminal oxidases

ctaC	ctaD	ctaE	ctaF
ctaG	scuA	ythA	ythB
qoxD	qoxC	qoxB	qoxA
cydD	cydC	cydB	cydA

SW 2.1.2.2 Anaerobic respiration

nasF	nasE	nasD	narI
narJ	narH	narG	narK
nirC

SW 2.1.2.3 Anaerobic respiration/based on similarity

yojN

SW 2.1.2.4 Respiration/ other

ndh	ccdA	ndhF	qcrC
qcrB	qcrA	resC	resB
resA	cccA	cccB

SW 2.1.3 Electron transport/ other

cypE	hmpA	fldN	fldP
sspT	yosR	fer	cypC
cypB	bscR	trxA	etfA
etfB	trxBB	trxB	nfrAA
nfrAB	cypD

SW 2.1.4 Electron transport/ other/ based on similarity

yhfW	yjgC	ahpA	yneN
yoaE	noxC	yrkL	cypA
ytpP	yutJ	yusE	ffoR
cypX	ywrO	yyaE	ydbP
ydeQ	ydfQ	hypO

SW 2.1.5 ATP synthesis

sucC	sucD	ackA	pgk
atpC	atpD	atpG	atpA
atpH	atpF	atpE	atpB
atpI

SW 2.1.5.1 ATPase

atpC	atpD	atpG	atpA
atpH	atpF	atpE	atpB
atpI

SW 2.1.5.2 Substrate-level phosphorylation

SW 2.2 Carbon metabolism

senS	glpP	glpF	glpK
glpD	iolQ	iolX	manR
manP	manA	uxaC	exuM
yjmC	yjmD	uxuA	uxuB
exuT	exuR	uxaB	uxaA
pgl	glcT	ptsG	ccpC
fruR	fruK	fruA	pdhA
pdhB	pdhC	pdhD	pycA
rpe	sucC	sucD	xynP
xynB	xylR	xylA	xylB
tktA	citB	eglS	xynC
xynD	galM	yoaB	pelB
ybaR	xynA	odhB	odhA
murP	murR	murQ	ybcM
kdgT	kdgA	kdgK	kdgR
kduI	kduD	mgsA	mleA
mleN	zwf	gndA	glpQA
glpT	glcK	ppsR	ccpN
gamP	gamA	gamR	yraO
csn	sacC	levG	levF
levE	levD	levR	kdgD
gucD	gudP	gudD	garR
garD	sdhB	sdhA	sdhC
abfB	cstA	abfA	araQ
araP	araN	araD	araB
araA	abnA	frvX	pftB
pftA	gapB	mdh	icd
citZ	pyk	pfkA	maeB
ackA	acsA	acuA	acuC
maeC	amyX	rmgQ	rmgP
ytcQ	ytcP	msmR	msmE
msmF	msmG	melA	pckA
iolU	rhaA	rhaM	rhaB
rhaR	rhaE	yugT	pgi
maeL	maeM	maeN	frlP
frlR	frlD	frlM	frlN
frlO	frlB	amyE	lctE
lctP	fumC	iolW	eno
pgm	tpiA	pgk	gapA
cggR	araE	araR	lutC
lutB	lutA	ganB	ganA
ganQ	ganP	ganS	ganR
lutR	lutP	sacB	levB
mdxM	mdxL	mdxK	mdxG
mdxF	mdxE	mdxD	mdxR
pelC	nagA	nagBA	nagR
pmiA	rbsR	rbsK	rbsD
rbsA	rbsC	rbsB	alsD
alsS	alsR	bglC	rpiB
maeA	glpX	tal	fbaA
pta	sacA	sacP	sacT
galT	galK	sacX	sacY
licH	licA	licC	licB
licR	cimH	msmX	galE
citH	bglS	licT	bglH
bglP	abnB	iolJ	iolI
iolH	iolG	iolF	iolE
iolD	iolC	iolB	iolA
iolR	iolS	gntR	gntK
gntP	gntZ	bglA	fbp
maa	mtlA	mtlF	mtlD
mtlR	lyxE	dctB	dctS
dctR	dctP	gmuB	gmuA
gmuC	gmuD	gmuR	gmuE
gmuF	gmuG	rex	gutR
gutB	gutP	ydjE	iolT
bdhA	yesO	rhgP	rhgQ
rhgH	rhgR	rhgT	yesV
rhgW	rhgX	yesY	rhgZ
yetA	lplD	pelA	maeS
citS	citT	citM	nagP
treP	treA	treR	acoA
acoB	acoC	acoL	acoR
malA	malR	malP	yfiG

SW 2.2.1 Carbon core metabolism

pgl	glcT	ptsG	ccpC
pdhA	pdhB	pdhC	pdhD
pycA	rpe	sucC	sucD
tktA	citB	odhB	odhA
mgsA	zwf	gndA	ppsR
ccpN	sdhB	sdhA	sdhC
gapB	mdh	icd	citZ
pyk	pfkA	ackA	pckA
pgi	lctE	lctP	fumC
eno	pgm	tpiA	pgk
gapA	cggR	alsD	alsS
alsR	rpiB	glpX	tal
fbaA	pta	fbp	rex
bdhA

SW 2.2.1.1 Glycolysis

glcT	ptsG	mgsA	pyk
pfkA	pgi	eno	pgm
tpiA	pgk	gapA	cggR
fbaA

SW 2.2.1.2 Gluconeogenesis

ppsR	ccpN	gapB	pckA
pgi	eno	pgm	tpiA
pgk	glpX	fbaA	fbp

SW 2.2.1.3 Pentose phosphate pathway

pgl	rpe	tktA	zwf
gndA	rpiB	tal

SW 2.2.1.4 TCA cycle

ccpC	pdhA	pdhB	pdhC
pdhD	pycA	sucC	sucD
citB	odhB	odhA	sdhB
sdhA	sdhC	mdh	icd
citZ	fumC

SW 2.2.1.5 Overflow metabolism

ackA	lctE	lctP	alsD
alsS	alsR	pta	rex
bdhA

SW 2.2.2 Utilization of specific carbon sources

senS	glpP	glpF	glpK
glpD	iolQ	iolX	manR
manP	manA	uxaC	exuM
yjmC	yjmD	uxuA	uxuB
exuT	exuR	uxaB	uxaA
fruR	fruK	fruA	xynP
xynB	xylR	xylA	xylB
eglS	xynC	xynD	galM
yoaB	pelB	ybaR	xynA
murP	murR	murQ	ybcM
kdgT	kdgA	kdgK	kdgR
kduI	kduD	mleA	mleN
glpQA	glpT	glcK	gamP
gamA	gamR	yraO	csn
sacC	levG	levF	levE
levD	levR	kdgD	gucD
gudP	gudD	garR	garD
abfB	cstA	abfA	araQ
araP	araN	araD	araB
araA	abnA	frvX	pftB
pftA	maeB	acsA	acuA
acuC	maeC	amyX	rmgQ
rmgP	ytcQ	ytcP	msmR
msmE	msmF	msmG	melA
iolU	rhaA	rhaM	rhaB
rhaR	rhaE	yugT	maeL
maeM	maeN	frlP	frlR
frlD	frlM	frlN	frlO
frlB	amyE	iolW	araE
araR	lutC	lutB	lutA
ganB	ganA	ganQ	ganP
ganS	ganR	lutR	lutP
sacB	levB	mdxM	mdxL
mdxK	mdxG	mdxF	mdxE
mdxD	mdxR	pelC	nagA
nagBA	nagR	pmiA	rbsR
rbsK	rbsD	rbsA	rbsC
rbsB	bglC	maeA	sacA
sacP	sacT	galT	galK
sacX	sacY	licH	licA
licC	licB	licR	cimH
msmX	galE	citH	bglS
licT	bglH	bglP	abnB
iolJ	iolI	iolH	iolG
iolF	iolE	iolD	iolC
iolB	iolA	iolR	iolS
gntR	gntK	gntP	gntZ
bglA	maa	mtlA	mtlF
mtlD	mtlR	lyxE	dctB
dctS	dctR	dctP	gmuB
gmuA	gmuC	gmuD	gmuR
gmuE	gmuF	gmuG	gutR
gutB	gutP	ydjE	iolT
yesO	rhgP	rhgQ	rhgH
rhgR	rhgT	yesV	rhgW
rhgX	yesY	rhgZ	yetA
lplD	pelA	maeS	citS
citT	citM	nagP	treP
treA	treR	acoA	acoB
acoC	acoL	acoR	malA
malR	malP	yfiG

SW 2.2.2.1 Utilization of organic acids

yoaB	ybaR	mleA	mleN
yraO	cstA	pftB	pftA
maeB	acsA	acuA	acuC
maeC	maeL	maeM	maeN
lutC	lutB	lutA	lutR
lutP	maeA	cimH	citH
dctB	dctS	dctR	dctP
maeS	citS	citT	citM

SW 2.2.2.10 Utilization of mannitol

SW 2.2.2.11 Utilization of glucitol

gutR

gutB

gutP

SW 2.2.2.12 Utilization of rhamnose

rhaA	rhaM	rhaB	rhaR
rhaE

SW 2.2.2.13 Utilization of gluconate

SW 2.2.2.14 Utilization of glucarate/galactarate

kdgD	gucD	gudP	gudD
garR	garD

SW 2.2.2.15 Utilization of hexuronate

uxaC	exuM	yjmC	yjmD
uxuA	uxuB	exuT	exuR
uxaB	uxaA	kdgT	kdgA
kdgK	kdgR	kduI	kduD

SW 2.2.2.16 Utilization of inositol

iolQ	iolX	iolU	iolW
iolJ	iolI	iolH	iolG
iolF	iolE	iolD	iolC
iolB	iolA	iolR	iolS
iolT	yfiG

SW 2.2.2.17 Utilization of amino sugars

murP	murR	murQ	gamP
gamA	gamR	frlP	frlR
frlD	frlM	frlN	frlO
frlB	nagA	nagBA	nagR
nagP

SW 2.2.2.18 Utilization of beta-glucosides

bglC	licT	bglH	bglP
bglA

SW 2.2.2.19 Utilization of sucrose

sacB	sacA	sacP	sacT
sacX	sacY	ydjE

SW 2.2.2.2 Utilization of acetoin

acoA	acoB	acoC	acoL
acoR

SW 2.2.2.20 Utilization of trehalose

SW 2.2.2.21 Utilization of melibiose

msmR	msmE	msmF	msmG
melA	msmX

SW 2.2.2.22 Utilization of maltose

glcK	mdxK	malA	malR
malP

SW 2.2.2.23 Utilization of starch/ maltodextrin

glcK	amyX	amyE	mdxM
mdxL	mdxG	mdxF	mdxE
mdxD	mdxR	msmX	maa

SW 2.2.2.24 Utilization of galactan

ganB	ganA	ganQ	ganP
ganS	ganR	msmX

SW 2.2.2.25 Utilization of glucomannan

gmuB	gmuA	gmuC	gmuD
gmuR	gmuE	gmuF	gmuG

SW 2.2.2.26 Utilization of pectin

ybcM	rmgQ	rmgP	ytcQ
ytcP	msmX	yesO	rhgP
rhgQ	rhgH	rhgR	rhgT
yesV	rhgW	rhgX	yesY
rhgZ	yetA	lplD

SW 2.2.2.27 Utilization of other polymeric carbohydrates

senS	eglS	xynC	xynD
pelB	csn	sacC	levG
levF	levE	levD	levR
frvX	yugT	levB	pelC
licH	licA	licC	licB
licR	bglS	licT	pelA

SW 2.2.2.28 Utilization of other pentoses and hexoses

lyxE

SW 2.2.2.3 Utilization of glycerol/ glycerol-3-phosphate

glpP	glpF	glpK	glpD
glpQA	glpT

SW 2.2.2.4 Utilization of ribose

rbsR	rbsK	rbsD	rbsA
rbsC	rbsB

SW 2.2.2.5 Utilization of xylan/ xylose

xynP	xynB	xylR	xylA
xylB	xynA

SW 2.2.2.6 Utilization of arabinan/ arabinose/ arabitol

abfB	abfA	araQ	araP
araN	araD	araB	araA
abnA	araE	araR	abnB

SW 2.2.2.7 Utilization of fructose

fruR	fruK	fruA	levG
levF	levE	levD	levR

SW 2.2.2.8 Utilization of galactose

SW 2.2.2.9 Utilization of mannose

SW 2.3 Amino acid/ nitrogen metabolism

pabA	tcyP	bcaP	trpP
serC	gltT	aprE	asnO
samT	nprB	argC	argJ
argB	argD	carA	carB
argF	appD	appF	appB
appC	cysE	oppA	oppB
oppC	oppD	oppF	metI
metC	proCC	dppA	dppB
dppC	dppD	dppE	ykfD
proB	proA	metE	ispA
tnrA	mtnA	mtnK	mtnU
mtnE	mtnW	mtnX	mtnB
mtnD	papB	dapX	dapH
dapI	rgpA	nprE	glsB
bpr	sdaAB	sdaAA	asd
dapG	dapA	tdh	kbl
aprX	glnR	glnA	citB
alsT	ldeE	ldeF	ldeG
lgeHB	ldeHA	ldeI	ldeJ
gltB	gltA	gltC	proJ
proH	yoaD	yoaV	yodF
murP	murR	murQ	ilvA
ilvD	metAA	aspB	dapB
aroA	tyrA	hisC	trpA
trpB	trpF	trpC	trpD
trpE	aroH	aroB	aroF
mtrB	gudB	serA	aroC
lysA	ansB	ansA	ansR
proI	artR	artQ	artP
bkdB	bkdAB	bkdAA	lpdV
buk	bcd	ptb	bkdR
mmgF	mmgE	mmgD	mmgC
mmgB	mmgA	argR	papA
gcvPB	gcvPA	gcvT	mpr
aroE	gamP	gamA	gamR
ilvE	ybgF	brnQ	azlD
azlC	azlB	ybgG	glnT
glsA	glnJ	glnL	mccB
mccA	mtnN	glnQ	glnH
glnM	glnP	alaP	rtpA
pheA	thrR	leuD	leuC
leuB	leuA	ilvC	ilvH
ilvB	lysCA	ysaA	tcyN
tcyM	tcyL	tcyK	tcyJ
ascR	argH	ansZ	argG
braB	hisK	aroX	ytnA
asnB	metK	luxS	patB
adeR	ald	dapF	thrB
thrC	hom	frlP	frlR
frlD	frlM	frlN	frlO
frlB	metQ	metP	metN
gcvH	lysP	aroK	cyeB
putB	putC	putP	aspP
putR	hisIE	hisF	hisA
hisH	hisB	hisD	hisG
nagA	nagBA	nasF	nagR
nasE	nasD	nasC	nasB
nasA	amtB	glnK	ureC
ureB	ureA	glyA	rocC
rocB	rocA	rocG	vpr
tcyC	tcyB	tcyA	epr
ilvK	pepT	yxjH	dtpT
yxjG	hutP	hutH	hutU
hutI	hutG	hutM	yxeO
yxeN	yxeM	asnH	thrD
argI	rocE	rocD	rocR
gabR	gabT	gabD	pxpG
ridA	prs	gabP	nagP
cysK

SW 2.3.1 Biosynthesis/ acquisition of amino acids

pabA	tcyP	bcaP	trpP
serC	gltT	asnO	samT
argC	argJ	argB	argD
carA	carB	argF	cysE
metI	metC	proCC	proB
proA	metE	tnrA	mtnA
mtnK	mtnU	mtnE	mtnW
mtnX	mtnB	mtnD	dapX
dapH	dapI	rgpA	asd
dapG	dapA	glnR	glnA
alsT	gltB	gltA	gltC
proJ	proH	yoaD	ilvA
ilvD	metAA	aspB	dapB
aroA	tyrA	hisC	trpA
trpB	trpF	trpC	trpD
trpE	aroH	aroB	aroF
mtrB	serA	aroC	lysA
proI	artR	artQ	artP
argR	aroE	ilvE	ybgF
brnQ	azlD	azlC	azlB
ybgG	glnT	glnJ	glnL
mccB	mccA	mtnN	glnQ
glnH	glnM	glnP	alaP
rtpA	pheA	thrR	leuD
leuC	leuB	leuA	ilvC
ilvH	ilvB	lysCA	ysaA
tcyN	tcyM	tcyL	tcyK
tcyJ	ascR	argH	argG
braB	hisK	aroX	ytnA
asnB	metK	luxS	patB
dapF	thrB	thrC	hom
metQ	metP	metN	lysP
aroK	putP	aspP	hisIE
hisF	hisA	hisH	hisB
hisD	hisG	amtB	glnK
glyA	rocC	tcyC	tcyB
tcyA	ilvK	yxjH	yxjG
hutM	yxeO	yxeN	yxeM
asnH	thrD	rocE	ridA
prs	cysK

SW 2.3.1.1 Biosynthesis/ acquisition of glutamate/ glutamine/ ammonium assimilation

gltT	tnrA	glnR	glnA
alsT	gltB	gltA	gltC
glnT	glnJ	glnL	glnQ
glnH	glnM	glnP	amtB
glnK

SW 2.3.1.10 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine

metI	metC	metE	mtnA
mtnK	mtnU	mtnE	mtnW
mtnX	mtnB	mtnD	metAA
mtnN	metK	luxS	patB
hom	metQ	metP	metN

SW 2.3.1.11 Biosynthesis/ acquisition of methionine/ S-adenosylmethionine/ based on similarity

samT	yoaD	ybgG	yxjH
yxjG

SW 2.3.1.12 Biosynthesis/ acquisition of branched-chain amino acids

bcaP	ilvA	ilvD	ilvE
brnQ	azlD	azlC	azlB
leuD	leuC	leuB	leuA
ilvC	ilvH	ilvB	braB
ilvK	ridA

SW 2.3.1.13 Biosynthesis/ acquisition of aromatic amino acids

pabA	trpP	aroA	tyrA
hisC	trpA	trpB	trpF
trpC	trpD	trpE	aroH
aroB	aroF	mtrB	aroC
aroE	rtpA	pheA	aroX
aroK

SW 2.3.1.14 Biosynthesis/ acquisition of histidine

ybgF	hisK	hisIE	hisF
hisA	hisH	hisB	hisD
hisG	hutM	prs

SW 2.3.1.2 Biosynthesis/ acquisition of proline

proCC	proB	proA	proJ
proH	proI	putP

SW 2.3.1.3 Biosynthesis/ acquisition of proline/ based on similarity

ytnA

SW 2.3.1.4 Biosynthesis/ acquisition of arginine

argC	argJ	argB	argD
carA	carB	argF	rgpA
artR	artQ	artP	argR
argH	argG	rocC	rocE

SW 2.3.1.5 Biosynthesis/ acquisition of aspartate/ asparagine

asnO	aspB	asnB	aspP
asnH

SW 2.3.1.6 Biosynthesis/ acquisition of lysine/ threonine

dapX	dapI	asd	dapG
dapA	dapB	lysA	thrR
lysCA	dapF	thrB	thrC
hom	lysP	thrD

SW 2.3.1.7 Biosynthesis/ acquisition of lysine/ threonine/ based on similarity

dapH

SW 2.3.1.8 Biosynthesis/ acquisition of serine/ glycine/ alanine

serC	serA	alaP	ysaA
glyA

SW 2.3.1.9 Biosynthesis/ acquisition of cysteine

tcyP	cysE	mccB	mccA
tcyN	tcyM	tcyL	tcyK
tcyJ	ascR	tcyC	tcyB
tcyA	yxeO	yxeN	yxeM
cysK

SW 2.3.2 Utilization of amino acids

bcaP	gltT	rgpA	glsB
sdaAB	sdaAA	tdh	kbl
citB	alsT	ldeE	ldeF
ldeG	lgeHB	ldeHA	ldeI
ldeJ	gudB	ansB	ansA
ansR	bkdB	bkdAB	bkdAA
lpdV	buk	bcd	ptb
bkdR	mmgF	mmgE	mmgD
mmgC	mmgB	mmgA	argR
gcvPB	gcvPA	gcvT	ybgF
azlD	azlC	azlB	glnT
glsA	glnJ	glnL	glnQ
glnH	glnM	glnP	alaP
ansZ	ytnA	adeR	ald
gcvH	putB	putC	putP
aspP	putR	rocC	rocB
rocA	rocG	hutP	hutH
hutU	hutI	hutG	hutM
argI	rocE	rocD	rocR
gabR	gabT	gabD	gabP

SW 2.3.2.1 Utilization of glutamine/ glutamate

gltT	glsB	alsT	gudB
glnT	glsA	glnJ	glnL
glnQ	glnH	glnM	glnP
rocG

SW 2.3.2.10 Utilization of gamma-amino butyric acid

SW 2.3.2.2 Utilization of proline

SW 2.3.2.3 Utilization of proline/ based on similarity

ytnA

SW 2.3.2.4 Utilization of arginine/ ornithine

rgpA	argR	rocC	rocB
rocA	rocG	argI	rocE
rocD	rocR

SW 2.3.2.5 Utilization of histidine

ybgF	hutP	hutH	hutU
hutI	hutG	hutM

SW 2.3.2.6 Utilization of asparagine/ aspartate

ansB	ansA	ansR	ansZ
aspP

SW 2.3.2.7 Utilization of alanine/ serine

sdaAB	sdaAA	alaP	adeR
ald

SW 2.3.2.8 Utilization of threonine/ glycine

tdh	kbl	gcvPB	gcvPA
gcvT	gcvH

SW 2.3.2.9 Utilization of branched-chain amino acids

bcaP	citB	ldeE	ldeF
ldeG	lgeHB	ldeHA	ldeI
ldeJ	bkdB	bkdAB	bkdAA
lpdV	buk	bcd	ptb
bkdR	mmgF	mmgE	mmgD
mmgC	mmgB	mmgA	azlD
azlC	azlB

SW 2.3.3 Utilization of nitrogen sources other than amino acids

aprE	nprB	appD	appF
appB	appC	oppA	oppB
oppC	oppD	oppF	dppA
dppB	dppC	dppD	dppE
ykfD	ispA	papB	nprE
bpr	aprX	murP	murR
murQ	papA	mpr	gamP
gamA	gamR	frlP	frlR
frlD	frlM	frlN	frlO
frlB	nagA	nagBA	nasF
nagR	nasE	nasD	nasC
nasB	nasA	ureC	ureB
ureA	vpr	epr	pepT
dtpT	nagP

SW 2.3.3.1 Utilization of nitrate/ nitrite

nasF	nasE	nasD	nasC
nasB	nasA

SW 2.3.3.2 Utilization of urea

ureC

ureB

ureA

SW 2.3.3.3 Utilization of amino sugars

murP	murR	murQ	gamP
gamA	gamR	frlP	frlR
frlD	frlM	frlN	frlO
frlB	nagA	nagBA	nagR
nagP

SW 2.3.3.4 Utilization of peptides

appD	appF	appB	appC
oppA	oppB	oppC	oppD
oppF	dppA	dppB	dppC
dppD	dppE	ykfD	papB
papA	pepT	dtpT

SW 2.3.3.5 Utilization of proteins

aprE	nprB	ispA	nprE
bpr	aprX	mpr	vpr
epr

SW 2.3.4 Putative amino acid transporter

SW 2.4 Lipid metabolism

estB	mprF	fabL	glpP
glpD	pgcA	akrN	plsC
yhdW	fabHB	lcfB	phoE
farP	ispD	fakBB	ispF
fabHA	fabF	fabI	cypE
fadH	ykuG	yloV	fapR
plsX	fabD	fabG	acpA
uppS	cdsA	dxr	pgsA
plsY	desE	desK	desR
ugtP	birA	gpsA	fni
nudF	cypC	glpQA	glpT
glpQ	dxs	ispA	yqhY
accC	accB	ispG	ispH
cesB	pssA	psd	cypB
bscR	etfA	etfB	fadB
fadR	lcfA	accA	accD
estA	acsA	acuA	acuC
fadE	fadA	fadN	putM
pnbA	cotR	fakBA	gtaB
fabZ	clsA	acdA	fadF
clsB	clsC	scoB	scoA
ycsD	lipC	acpS	cesA
ispE	pcrB	cypD

SW 2.4.1 Utilization of lipids

estB	glpP	glpD	yhdW
lcfB	fadH	ykuG	glpQA
glpT	glpQ	cesB	etfA
etfB	fadB	fadR	lcfA
estA	acsA	acuA	acuC
fadE	fadA	fadN	putM
pnbA	cotR	acdA	fadF
scoB	scoA	lipC	cesA

SW 2.4.1.1 Utilization of phospholipids

glpP	glpD	glpQA	glpT
cotR	lipC

SW 2.4.1.2 Utilization of phospholipids/ based on similarity

yhdW

glpQ

SW 2.4.1.3 Utilization of fatty acids

lcfB	fadH	ykuG	etfA
etfB	fadB	fadR	lcfA
acsA	acuA	acuC	fadE
fadA	fadN	putM	acdA
fadF	scoB	scoA

SW 2.4.1.4 Utilization of lipids/ other

estB	cesB	estA	pnbA
cesA

SW 2.4.2 Biosynthesis of lipids

mprF	fabL	akrN	plsC
fabHB	phoE	farP	ispD
fakBB	ispF	fabHA	fabF
fabI	yloV	fapR	plsX
fabD	fabG	acpA	uppS
cdsA	dxr	pgsA	plsY
birA	gpsA	fni	nudF
dxs	ispA	yqhY	accC
accB	ispG	ispH	pssA
psd	accA	accD	fakBA
fabZ	clsA	clsB	clsC
ycsD	acpS	ispE

SW 2.4.2.1 Biosynthesis of fatty acids

fabL	akrN	plsC	fabHB
fabHA	fabF	fabI	fapR
plsX	fabD	fabG	acpA
birA	yqhY	accC	accB
accA	accD	fabZ	ycsD
acpS

SW 2.4.2.2 Biosynthesis of phospholipids

mprF	fakBB	yloV	cdsA
pgsA	plsY	gpsA	pssA
psd	fakBA	clsA	clsB
clsC

SW 2.4.2.3 Biosynthesis of isoprenoids

phoE	farP	ispD	ispF
uppS	dxr	fni	nudF
dxs	ispA	ispG	ispH
ispE

SW 2.4.3 Lipid metabolism/ other

pgcA	cypE	desE	desK
desR	ugtP	cypC	cypB
bscR	gtaB	pcrB	cypD

SW 2.5 Nucleotide metabolism

yhcA	dgcK	mncR	radA
disA	relP	purU	guaN
dgcW	adeC	guaB	adk
pyrR	pyrP	pyrB	pyrC
pyrAA	pyrAB	pyrK	pyrD
pyrF	pyrE	gmk	pyrH
nrdI	nrdE	nrdF	dutA
thyA	cdaS	deoD	dutB
nrdEB	nrdEB	cdaA	cdaR
thyB	hdhQ	pbuX	xpt
ndk	cmk	dck	pupG
deoB	dgk	purT	cdd
pgpH	nucB	udk	rsh
apt	dgcP	pbuO	nupN
nupO	nupP	nupQ	pdeH
guaC	yutK	pucH	pucR
pucJ	pucK	pucL	pucM
pucE	pucD	pucC	pucB
pucA	pucG	pucF	rnr
pucI	upp	tdk	pyrG
relQ	yxlA	nupG	pdp
nupC	deoC	deoR	purA
gdpP	ycnB	tmk	purR
pbuE	prs	guaA	pbuG
purE	purK	purB	purC
purS	purQ	purL	purF
purM	purN	purH	purD
hprT	yfkN

SW 2.5.1 Utilization of nucleotides

adeC	deoB	nucB	pucH
pucR	pucJ	pucK	pucL
pucM	pucE	pucD	pucC
pucB	pucA	pucG	pucF
pucI	pdp	nupC	deoC
deoR

SW 2.5.2 Biosynthesis/ acquisition of nucleotides

mncR	purU	guaN	guaB
adk	pyrR	pyrP	pyrB
pyrC	pyrAA	pyrAB	pyrK
pyrD	pyrF	pyrE	gmk
pyrH	nrdI	nrdE	nrdF
thyA	deoD	nrdEB	nrdEB
thyB	pbuX	xpt	cmk
dck	pupG	dgk	purT
udk	apt	pbuO	nupN
nupO	nupP	nupQ	guaC
yutK	rnr	upp	tdk
pyrG	yxlA	nupG	purA
tmk	purR	prs	guaA
pbuG	purE	purK	purB
purC	purS	purQ	purL
purF	purM	purN	purH
purD	hprT

SW 2.5.2.1 Biosynthesis/ acquisition of purine nucleotides

purU	guaB	adk	gmk
pbuX	purT	nupN	nupO
nupP	nupQ	nupG	purA
purR	prs	guaA	pbuG
purE	purK	purB	purC
purS	purQ	purL	purF
purM	purN	purH	purD

SW 2.5.2.2 Biosynthesis/ acquisition of purine nucleotides/ based on similarity

pbuO

SW 2.5.2.3 Purine salvage and interconversion

guaN	deoD	xpt	dck
pupG	dgk	apt	guaC
hprT

SW 2.5.2.4 Biosynthesis/ acquisition of pyrimidine nucleotides

pyrR	pyrP	pyrB	pyrC
pyrAA	pyrAB	pyrK	pyrD
pyrF	pyrE	pyrH	thyA
thyB	cmk	udk	upp
tdk	pyrG	tmk	prs

SW 2.5.2.5 Biosynthesis/ acquisition of nucleotides/ other

mncR	nrdI	nrdE	nrdF
nrdEB	nrdEB	rnr

SW 2.5.2.6 Biosynthesis/ acquisition of nucleotides/ other/ based on similarity

yutK

yxlA

SW 2.5.3 Metabolism of signalling nucleotides

yhcA	dgcK	radA	disA
relP	dgcW	cdaS	cdaA
cdaR	pgpH	rsh	dgcP
pdeH	relQ	gdpP	ycnB
yfkN

SW 2.5.4 Nucleotide metabolism/ other

dutA	dutB	hdhQ	ndk
cdd	pbuE

SW 2.6 Additional metabolic pathways

pabB	pabA	sxzY	sxzZ
sxzA	pabC	folP	csbB
yfhO	folB	gsaB	folK
thiC	ssuB	ssuA	ssuC
ssuD	pgcA	phoA	dat
hemZ	hmoB	hemE	hemH
hemY	lplJ	yhfQ	bioY
ntdC	ntdB	ntdA	ntdR
yisZ	yitA	yitB	ribZC
yitW	ppnKA	tenA	tenI
thiO	thiS	thiG	thiF
thiD	ctaO	pitB	thiX
thiW	thiV	thiU	pfeT
dapX	ltdD	dapH	dapI
mobA	moeB	moeA	mobB
moaE	moaD	defB	speA
ctaA	ctaB	panE	bshC
murE	mraY	murD	spoVE
murG	murB	thiQ	ylmD
cysH	cysP	sat	cysC
sumT	sirB	sirC	coaBC
thiN	uppS	ribC	spoVFA
spoVFB	asd	dapG	dapA
bcbE	pksB	pksC	pksD
pksE	acpK	pksF	pksG
pksH	pksI	pksJ	pksL
pksM	pksN	pksR	pksS
pdxS	ppsE	ppsD	ppsC
ppsB	ppsA	eesA	feuC
feuB	feuA	btr	bshBB
pdxT	ldcB	phyC	glmM
glmS	sunS	sunT	sunA
dfrA	S834	bpsB	bpsA
panD	panC	panB	birA
bshA	bshBA	dapB	hepT
menG	hepS	folEA	fmnP
ribH	ribBA	ribE	ribD
fur	coaA	dxs	lipM
ltaSC	pstBB	pstBA	pstA
pstC	pstS	unpK	yqeW
hemN	nadD	bltR	blt
bltD	murI	cymR	spoVB
nadA	nadC	nadB	nifS
niaR	folC	hemL	hemB
hemD	hemC	hemX	hemA
rcmE	phoD	tatAD	tatCD
speD	coaE	phoR	phoP
sndA	ribR	cmoJ	cmoI
cmoO	snaA	ascR	moaB
ppnKB	murC	ytpQ	murJ
bioI	bioB	bioD	bioFC
bioK	bioW	ytoA	dps
menC	menE	menB	menH
menD	menF	glgP	glgA
glgD	glgC	glgB	thiT
gbsB	gbsA	gbsR	pncB
niaP	pncA	dhbF	dhbB
dhbE	dhbC	dhbA	besA
paiA	sufA	dapF	lipA
bsnA	sufB	sufU	sufS
sufD	sufC	gcvH	feuV
mrgA	yvqK	yvrA	yvrB
yvrC	fhuC	fhuG	fhuB
fhuD	ltaSP	nadE	cysI
cysJ	mgfK	cypX	pchC
tagO	tuaH	folEB	tuaG
tuaF	tuaE	tuaD	tuaC
tuaB	tuaAc	tuaAn	yciB
mnaA	gtaB	ggaB	ggaA
tagH	tagG	tagF	tagE
tagD	tagA	tagB	tagC
ribZB	bcrC	moaA	murAA
srfAA	murAB	srfAB	srfAC
sboA	sboX	albA	albB
albC	albD	albE	albF
albG	srfAD	speB	speE
lipL	cysL	hemQ	bacG
bacF	bacE	bacD	bacC
bacB	bacA	spsL	spsK
spsJ	spsI	sfpAc	sfpAn
pdxK	ywcD	efeB	efeM
efeU	thiE	thiM	menA
dltA	dltB	dltC	dltD
dltE	sndB	yxeO	yxeN
yxeM	snaB	yxeK	frxB
pbtN	walJ	pbtO	pbtP
pbtQ	ppaC	ribZ	amj
fbpB	ddlA	murF	alrA
phoB	fra	thiL	glmU
moaC	yabM	sapB	dagK
hmoA	ltaSA	mtrA	fecF
fecE	fecD	fecC	nosA
ltaSB	coaX

SW 2.6.1 Biosynthesis of cell wall components

csbB	yfhO	pgcA	dat
dapX	ltdD	dapH	dapI
murE	mraY	murD	spoVE
murG	murB	ylmD	uppS
asd	dapG	dapA	ldcB
glmM	glmS	dapB	ltaSC
unpK	murI	spoVB	rcmE
murC	murJ	dapF	ltaSP
mgfK	tagO	tuaH	tuaG
tuaF	tuaE	tuaD	tuaC
tuaB	tuaAc	tuaAn	yciB
mnaA	gtaB	ggaB	ggaA
tagH	tagG	tagF	tagE
tagD	tagA	tagB	tagC
bcrC	murAA	murAB	ywcD
dltA	dltB	dltC	dltD
dltE	walJ	amj	ddlA
murF	alrA	glmU	yabM
dagK	ltaSA	ltaSB

SW 2.6.1.1 Biosynthesis of peptidoglycan

dat	dapX	ltdD	dapH
dapI	murE	mraY	murD
spoVE	murG	murB	ylmD
asd	dapG	dapA	ldcB
glmM	glmS	dapB	murI
spoVB	rcmE	murC	murJ
dapF	mgfK	yciB	murAA
murAB	walJ	amj	ddlA
murF	alrA	glmU	yabM

SW 2.6.1.2 Biosynthesis of lipoteichoic acid

csbB	yfhO	ltaSC	unpK
ltaSP	dagK	ltaSA	ltaSB

SW 2.6.1.3 Biosynthesis of teichoic acid

pgcA	tagO	mnaA	gtaB
ggaB	ggaA	tagH	tagG
tagF	tagE	tagD	tagA
tagB	tagC	ywcD	dltA
dltB	dltC	dltD	dltE

SW 2.6.1.4 Biosynthesis of teichuronic acid

tuaH	tuaG	tuaF	tuaE
tuaD	tuaC	tuaB	tuaAc
tuaAn

SW 2.6.1.5 Biosynthesis of the carrier lipid undecaprenylphosphate

uppS

bcrC

SW 2.6.2 Biosynthesis of cofactors

pabB	pabA	pabC	folP
folB	gsaB	folK	thiC
hemZ	hemE	hemH	hemY
lplJ	bioY	ribZC	ppnKA
tenA	tenI	thiO	thiS
thiG	thiF	thiD	ctaO
thiX	thiW	thiV	thiU
mobA	moeB	moeA	mobB
moaE	moaD	ctaA	ctaB
panE	thiQ	sumT	sirB
sirC	coaBC	thiN	ribC
pdxS	pdxT	dfrA	panD
panC	panB	birA	hepT
menG	hepS	folEA	fmnP
ribH	ribBA	ribE	ribD
coaA	dxs	lipM	hemN
nadD	nadA	nadC	nadB
nifS	niaR	folC	hemL
hemB	hemD	hemC	hemX
hemA	coaE	moaB	ppnKB
bioI	bioB	bioD	bioFC
bioK	bioW	menC	menE
menB	menH	menD	menF
thiT	pncB	niaP	pncA
lipA	gcvH	yvqK	yvrA
yvrB	yvrC	nadE	folEB
ribZB	moaA	lipL	hemQ
pdxK	thiE	thiM	menA
ribZ	thiL	moaC	coaX

SW 2.6.2.1 Biosynthesis/ acquisition of biotin

bioY	birA	bioI	bioB
bioD	bioFC	bioK	bioW

SW 2.6.2.10 Biosynthesis of molybdopterin

mobA	moeB	moeA	mobB
moaE	moaD	moaB	moaA
moaC

SW 2.6.2.11 Biosynthesis of NAD(P)

ppnKA	nadD	nadA	nadC
nadB	nifS	niaR	ppnKB
pncB	niaP	pncA	nadE

SW 2.6.2.12 Biosynthesis of pyridoxal phosphate

pdxS

pdxT

pdxK

SW 2.6.2.13 Biosynthesis/ acquisition of cobalamine (B12))

SW 2.6.2.2 Biosynthesis/ acquisition of riboflavin/ FAD

ribZC	ribC	fmnP	ribH
ribBA	ribE	ribD	ribZB
ribZ

SW 2.6.2.3 Biosynthesis/ acquisition of thiamine

thiC	tenA	tenI	thiO
thiS	thiG	thiF	thiD
thiX	thiW	thiV	thiU
thiQ	thiN	dxs	thiT
thiE	thiM	thiL

SW 2.6.2.4 Biosynthesis of coenzyme A

panE	coaBC	panD	panC
panB	coaA	coaE	coaX

SW 2.6.2.5 Biosynthesis of folate

pabB	pabA	pabC	folP
folB	folK	dfrA	folEA
folC	folEB

SW 2.6.2.6 Biosynthesis of heme/ siroheme

gsaB	hemZ	hemE	hemH
hemY	ctaO	ctaA	ctaB
sumT	sirB	sirC	hemN
hemL	hemB	hemD	hemC
hemX	hemA	hemQ

SW 2.6.2.7 Biosynthesis and scavenging of lipoic acid

lplJ	lipM	lipA	gcvH
lipL

SW 2.6.2.8 Biosynthesis of menaquinone

hepT	menG	hepS	menC
menE	menB	menD	menF
menA

SW 2.6.2.9 Biosynthesis of menaquinone/ based on similarity

menH

SW 2.6.3 Phosphate metabolism

phoA	pitB	phyC	pstBB
pstBA	pstA	pstC	pstS
yqeW	phoD	tatAD	tatCD
phoR	phoP	bsnA	ppaC
phoB	sapB

SW 2.6.4 Sulfur metabolism

ssuB	ssuA	ssuC	ssuD
yisZ	yitA	yitB	defB
cysH	cysP	sat	cysC
cymR	sndA	ribR	cmoJ
cmoI	cmoO	snaA	ascR
cysI	cysJ	cysL	sndB
yxeO	yxeN	yxeM	snaB
yxeK	mtrA

SW 2.6.4.1 Conversion of S-methyl cysteine to cysteine

defB	sndA	ribR	cmoJ
cmoI	cmoO	snaA	ascR

SW 2.6.4.2 sulfur metabolism/ general

ssuB	ssuA	ssuC	ssuD
yisZ	yitA	yitB	cysH
cysP	sat	cysC	cymR
cysI	cysJ	cysL	mtrA

SW 2.6.4.3 Conversion of S-(2-succino)cysteine to cysteine

sndB	yxeO	yxeN	yxeM
snaB	yxeK

SW 2.6.5 Iron metabolism

sxzY	sxzZ	sxzA	hmoB
yhfQ	yitW	pfeT	bcbE
eesA	feuC	feuB	feuA
btr	S834	fur	ytpQ
ytoA	dps	dhbF	dhbB
dhbE	dhbC	dhbA	besA
sufA	sufB	sufU	sufS
sufD	sufC	feuV	mrgA
fhuC	fhuG	fhuB	fhuD
cypX	pchC	efeB	efeM
efeU	frxB	pbtN	pbtO
pbtP	pbtQ	fbpB	fra
hmoA	fecF	fecE	fecD
fecC

SW 2.6.5.1 Acquisition of iron / Other

hmoB	yhfQ	bcbE	eesA
btr	S834	fur	ytpQ
dps	dhbF	dhbB	dhbE
dhbC	dhbA	besA	mrgA
cypX	pchC	pchR	fbpB
hmoA

SW 2.6.5.2 Acquisition of iron/ based on similarity

ytoA

SW 2.6.5.3 Biosynthesis of iron-sulfur clusters

yitW	sufA	sufB	sufU
sufS	sufD	sufC	fra

SW 2.6.5.4 ABC transporters for the uptake of iron/ siderophores

sxzY	sxzZ	sxzA	yhfQ
feuC	feuB	feuA	feuV
fhuC	fhuG	fhuB	fhuD
frxB	pbtN	pbtO	pbtP
pbtQ	fecF	fecE	fecD
fecC

SW 2.6.5.5 Elemental iron transport system

efeB

efeM

efeU

SW 2.6.5.6 Iron export

pfeT

SW 2.6.6 Miscellaneous metabolic pathways

ntdC	ntdB	ntdA	ntdR
speA	bshC	spoVFA	spoVFB
pksB	pksC	pksD	pksE
acpK	pksF	pksG	pksH
pksI	pksJ	pksL	pksM
pksN	pksR	pksS	ppsE
ppsD	ppsC	ppsB	ppsA
bshBB	sunS	sunT	sunA
bpsB	bpsA	bshA	bshBA
bltR	blt	bltD	speD
glgP	glgA	glgD	glgC
glgB	gbsB	gbsA	gbsR
paiA	srfAA	srfAB	srfAC
sboA	sboX	albA	albB
albC	albD	albE	albF
albG	srfAD	speB	speE
bacG	bacF	bacE	bacD
bacC	bacB	bacA	spsL
spsK	spsJ	spsI	sfpAc
sfpAn	nosA

SW 2.6.6.1 Biosynthesis of antibacterial compounds

ntdC	ntdB	ntdA	ntdR
pksB	pksC	pksD	pksE
acpK	pksF	pksG	pksH
pksI	pksJ	pksL	pksM
pksN	pksR	pksS	ppsE
ppsD	ppsC	ppsB	ppsA
sunS	sunT	sunA	bpsB
bpsA	srfAA	srfAB	srfAC
sboA	sboX	albA	albB
albC	albD	albE	albF
albG	srfAD	bacG	bacF
bacE	bacD	bacC	bacB
bacA	sfpAc	sfpAn	nosA

SW 2.6.6.2 Biosynthesis of bacillithiol

SW 2.6.6.3 Biosynthesis of dipicolinate

spoVFA

spoVFB

SW 2.6.6.4 Biosynthesis of glycine betaine

gbsB

gbsA

gbsR

SW 2.6.6.5 Biosynthesis of glycogen

glgP	glgA	glgD	glgC
glgB

SW 2.6.6.6 Metabolism of polyamines

speA	bltR	blt	bltD
speD	paiA	speB	speE

SW 2.6.6.7 Biosynthesis of rhamnose (for the exosporium)

SW 2.7 Detoxification reactions

rsgA	pncB	sndB	snaB
yxeK	pxpA	pxpB	pxpC
ridA	yflK	catD	catE

SW 3 Information processing

gyrA	linK	padR	yfiR
yfiV	yfhF	recX	mutY
gsaB	perR	SSU-rRNA-bacteria_rrnD-16S	LSU-rRNA-archaea_rrnD-23S
5S-rRNA_rrnD-5S	asnTA	trnD-Ser	trnD-Glu
trnD-Val	trnD-Met	trnD-Asp	trnD-Phe
trnD-Thr	trnD-Tyr	yazB	trnD-Trp
trnD-His	trnD-Gln	glyTB	cysTA
leuTA	leuTB	dusB	senS
rpsNB	ygzD	trnSL-Gly1	queG
trmL	lysS	prkA	yhbI
SSU-rRNA-bacteria_rrnJ-16S	yhcF	cspB	LSU-rRNA-archaea_rrnJ-23S
mncR	srtA	yhcT	5S-rRNA_rrnJ-5S
glpP	trnJ-Val	yhcY	yhcZ
nsrR	trnJ-Thr	citR	trnJ-Lys
yhdI	asiMB	asiMA	sigM
cueR	trnJ-Leu1	srtN	trnJ-Gly
bmrB	trnJ-Leu2	yhaZ	khtT
trnJ-Arg	yhaO	sbcE	yhaM
prsA	SSU-rRNA-bacteria_rrnO-16S	trnJ-Pro	scoC
trnJ-Ala	hinT	ecsA	ecsB
SSU-rRNA-bacteria_rrnW-16S	yhgD	LSU-rRNA-archaea_rrnW-23S	aprE
5S-rRNA_rrnW-5S	ctsR	comK	sipV
mcsA	yhjH	ntdR	mcsB
addB	addA	sbcD	sbcC
hlpB	clpC	pchI	wprA
radA	farP	yisR	iolQ
yisT	yisV	trnO-Ile	yizB
nprB	ipi	gltX	med
comZ	trpS	cysE	oppA
oppB	oppC	oppD	oppF
spxA	cysS	mecA	coiA
pepF	spxH	mrnC	yjbO
prpE	kefQ	rlmB	trnO-Ala
raeA	yjcD	sigH	yjcK
trnSL-Val2	rpmGB	secE	manR
manP	trnE	nusG	rplK
yjhB	rplA	yjlC	ndh
exuR	rapA	rplJ	phrA
xre	rplL	xpf	xtmA
xtmB	LSU-rRNA-archaea_rrnO-23S	rpoB	rpoC
rulS	ykcB	htrA	rpsL
rpsG	fusA	ohrR	ispA
rsbRB	tufA	ykoG	ykoH
mgtE	tnrA	ykoM	ligD
ligV	sigI	rsgI	5S-rRNA_rrnO-5S
rpsJ	htpK	htpX	kinE
ogt	rplC	rplD	spo0E
kinD	mhqR	motB	clpE
queC	rplW	queD	queE
queF	ykvN	rplB	rpsS
ykvZ	glcT	ptsG	ptsH
ptsI	splA	splB	rplV
kinA	cheV	kre	rpsC
ykuI	rplP	abbA	ykuL
ccpC	rpmC	rok	rpsQ
fruR	rplNA	sipT	abhA
kinC	rplX	ktrC	rnjA
rnpZA	rplE	pdhB	pdhC
rpsNA	nprE	sigP	sigQ
rpsH	bipA	rplF	ctaG
rplR	ricF	rsmD	rpsE
ylbL	ylbM	rpmF	gerR
rpmD	guaB	rplO	bpr
secY	spoIIGA	sigE	sigG
ileS	lspA	rluD	mapA
pyrR	pyrF	infA	fbnA
remA	gmk	rpoZ	priA
defA	rpmJ	fmt	rsmB
rlmN	prpC	prkC	rsgA
rpmB	rpsM	recG	fapR
rpsK	rnc	smc	ftsY
ylqB	ylxM	ffh	rpsP
rimM	rpoA	trmD	rplS
rbgA	rnhB	dprA	rplQ
topA	trmFO	codV	clpQ
clpY	codY	fliY	cheY
fliZ	fliP	fliQ	fliR
flhB	flhA	cheA	cheC
cheD	sigD	swrB	rpsB
truA	tsf	frr	rasP
proS	polC	rimP	nusA
rulQ	infB	rbfA	truB
rpsO	pnpA	mlpA	rplM
rnjB	tepA	tepJ	spoIIIE
ymfC	rpsI	efpI	recA
rny	miaB	ricA	mutS
mutL	pksA	salA	miaA
hfq	kbaA	hflX	ynbB
glnR	glnA	ynaD	SSU-rRNA-bacteria_rrnI-16S
xylR	LSU-rRNA-archaea_rrnI-23S	5S-rRNA_rrnI-5S	tatAC
trnI-Asn	pdxS	trnI-Thr	lexA
dinL	pcfA	spo0D	trnI-Gly
yneI	citB	trnI-Arg	parE
parC	trnI-Pro	trnI-Ala	nrnB
SSU-rRNA-bacteria_rrnH-16S	LSU-rRNA-archaea_rrnH-23S	trnSL-Arg1	ftsR
5S-rRNA_rrnH-5S	gltC	rtp	SSU-rRNA-bacteria_rrnG-16S
LSU-rRNA-archaea_rrnG-23S	5S-rRNA_rrnG-5S	yozG	yoaU
yobD	yobE	rapK	phrK
yobHc	yobHm	yozL	csaA
yobQ	yobS	czrA	desK
desR	recQ	btr	bsrB_6S_ssrSA
rsbRC	pdxT	arxR	ctpA
murR	sprB	yotL	trnSL-Glu2
trnSL-Val1	trnSL-Thr1	mtbP	yorS
trnSL-Tyr1	dpoL	yorK	yorI
trnSL-Gln2	sigW	yoqW	yoqV
rsiW	yopS	yopO	yonR
yonO	hupN	alkA	serS
adaA	adaB	bdbB	sunS
bdbA	uvrX	yolD	sprA
ypoP	silP	ybzH	cspD
degR	ypeP	ypdQ	exnP
trnSL-Ser1	ypwA	kdgR	ypvA
rlmKB	rnpB_RNaseP-bact-b_rnpB	yprB	yprA
recU	nth	dnaD	asnS
dinG	birA	cca	cheR
mtrB	hbs	gpsA	der
ybdJ	rpfA	dgrA	prsW
gudB	ybdK	mecB	recS
rsiX	sigX	resE	resD
ybdM	rluB	ypuI	spcB
scpA	sipS	ppiB	sigF
spoIIAB	spoIIAA	ripX	fur
ansR	yqxK	yqjX	polYB
S903	rnz	polYA	mifM
oxaAB	bmrR	bkdR	spo0A
spoIVB	recN	argR	yqxC
xseB	xseA	folD	nusB
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
efp	mntR	yqhH	sinI
sinR	sipW	comGG	comGF
comGE	comGD	comGC	comGB
comGA	rsbRD	trnSL-Gln1	mgsR
glpG	rpmGA	zur	ybfI
nfo	cshB	trmK	sigA
dnaG	ppsR	ccpN	glyS
glyQ	recO	mpr	era
rnrY	pgpH	rpsU	mtaB
rsmE	prmA	dnaJ	dnaK
grpE	hrcA	gpr	rpsT
holA	comEC	comEB	comEA
comER	rsfS	yqeI	rgpH
sda	sigKn	spoIVCA	arsR
rapE	phrE	ybfP	yqaG
yqaF	sknR	gamR	sigKc
yrkQ	yrkP	tadA	bltR
czcR	gltR	azlB	sigZ
yraN	glnJ	adhR	sufL
glnL	levE	levR	sigV
rsiV	bscR	scr_Bacteria-large-SRP_scr	greA
yrrM	rimF	alaS	garR
recDB	mnmA	iscSA	cymR
rarA	tcdA	bsrA_6S_ssrSB	aspS
hisS	dtd	recJ	secDF
comN	tgt	queA	ruvB
ruvA	bofC	rtpA	niaR
thrR	obgE	spo0B	rpmA
rppA	rplU	spoIVFB	spoIVFA
ycbL	ysxA	maf	comC
valS	dnaX	ycbM	engB
lonA	lonB	clpX	tig
trnSL-Arg2	rph	ysmB	gerE
uvrC	fadR	mutSB	polX
rnhC	pheT	pheS	rlmBB
ysfB	ysdB	rplT	rpmI
infC	tatAD	lytT	lytS
thrS	dnaI	dnaB	tatCD
nrdR	ytcD	mutM	polA
pcp	phoR	phoP	pfkA
dnaEC	nrnA	ytoI	lmrA
ascR	ytxK	sppA	trmG
iscSB	rpsD	tyrS	acuA
acuC	ccpA	natK	sftA
ytpR	recR	natR	trmB
ytzE	rsuA	rmgR	msmR
leuS	blrA	bceS	bceR
ytrA	rppG	luxS	rpmEB
rapJ	trnB-Glu	trnB-Ser2	trnB-Asn
trnB-Ile2	trnB-Gly2	trnB-His	trnB-Phe
trnB-Asp	trnB-Met2	trnB-Ser1	trnB-Met3
trnB-Met1	trnB-Ala	trnB-Pro	trnB-Arg
trnB-Leu2	trnB-Gly1	trnB-Leu1	trnB-Lys
trnB-Thr	trnB-Val	5S-rRNA_rrnB-5S	LSU-rRNA-eukarya_rrnB-23S
SSU-rRNA-bacteria_rrnB-16S	gbsR	bslA	ydaO-yuaA_swdA
ktrA	trnSL-Ala1	rhaR	mstX
pgi	yugG	kinB	kapB
kapD	bofA	maeL	maeM
comA	comP	comX	comQ
degQ	yueC	yueB	yukAB
yukC	yukD	adeR	yceK
paiB	lipA	SSU-rRNA-bacteria_rrnA-16S	pucR
bsnA	frlR	yuzN	mdtR
yusT	ycgE	htrB	cssR
cssS	spxO	liaR	liaS
liaF	yvrG	yvrH	rsoA
sigO	trnA-Ile	rsiO	helD
bdbC	bdbD	csoR	yvaF
ssrA_tmRNA_ssrA	smpB	rnr	secG
yvzC	rghRA	rghRB	catR
yvaV	sdpR	opuCA	opcR
ycgK	tpiA	pgk	cggR
araR	yvbU	yvfU	yvfT
rsbQ	rsbP	ganR	lutR
dnaA	trnA-Ala	sigL	epsB
epsA	slrR	yvdT	psmA
psmB	trnQ-Arg	clpP	putR
mdxR	psdS	psdR	crh
whiA	yvcJ	yvcI	hisZ
lgt	hprK	nagR	LSU-rRNA-archaea_rrnA-23S
uvrA	uvrB	yvkB	swrAAc
swrAAn	ctpB	ftsX	ftsE
prfB	secA	hag	csrA
flgM	comFC	comFB	comFA
degU	degS	zinU	rbsR
alsR	chrS	ywqM	nfi
ptpZ	ptkA	tkmA	hepA
glcR	ssbB	ywpD	rapD
spoIIID	ywoH	nin	glnK
nucA	mta	rapB	5S-rRNA_rrnA-5S
hxlR	glyA	ywlG	rpiB
prpB	tsaC	spoIIR	prmC
prfA	rpmEA	rho	spo0F
rpoE	uvsE	comS	arfM
fnr	argS	rapF	phrF
ywhA	thrZ	psrF	cysL
csfB	ycxD	rocG	bslB
ung	ywzG	sacP	sacT
vpr	slrC	slrA	cidR
rlmI	epr	sacX	sacY
tyrZR	bsdA	tyrZ	licB
licR	aag	yxlD	yxlC
sigY	yxjO	yxjM	yxjL
rlmA	licT	deaD	bglP
hutP	deoR	tpeK	tpeJ
yclJ	iolR	yclK	htpG
yxbF	rapC	phrC	qdoR
yxaD	gntR	yydK	liaM
liaL	liaK	liaE	liaD
rlmH	rapG	phrG	rocR
htrC	walJ	walI	walH
walK	walR	trnY-Phe	trnY-Asp
trnY-Glu	trnY-Lys	dnaC	yaaO
rplI	gdpP	hypR	ycnC
yybE	yybA	yyaN	ccpB
exoA	rpsR	ssbA	rpsF
yczG	parB	parA	rsmG
trmF	mnmE	gabR	oxaAA
rnpA	rpmH	cutR	mtlA
darA	sipU	pxpB	pxpC
dnaN	pxpR	mtlR	holB
lrpC	topB	ricT	epsK
ydaO-yuaA_swaO	kimA	nudT	dnaH
dctS	dctR	fbpB	cshA
rsmI	ndoA	rsbRA	rsbS
rsbT	abrB	rsbU	rsbV
rsbW	sigB	rsbX	ydcH
tex	trnS-Asn	trnS-Ser	trnS-Glu
trnS-Gln	trnS-Lys	trnS-Leu1	trnS-Leu2
metS	immA	immR	rlbA
rapI	phrI	lrpA	lrpB
cspC	rnmV	cdnL	ydeC
ydeE	ydeF	rsmA	ydeL
ydeP	prtG	ydeS	aseR
ydfD	ydfF	ydfH	ydfI
ydfL	ydgC	ydgE	dinB
ydgG	ydgJ	ydhC	recF
purR	gmuR	trnE-Arg	spoVG
trnE-Gly	SSU-rRNA-bacteria_rrnE-16S	LSU-rRNA-archaea_rrnE-23S	5S-rRNA_rrnE-5S
trnE-Met	trnE-Asp	tsaE	tsaB
rimI	tsaD	rex	tatAY
tatCY	groES	groEL	ctc
bsuMA	bsuMB	pth	bsuRA
bsuRB	bsuRC	gutR	fin
mfd	spoVT	purB	yezC
yerC	hslR	pcrA	ligA
gatC	gatA	gatB	yerO
rlmCD	yefB	yefC	yeeA
rapH	phrH	yezE	yesM
yesN	rhgR	trnSL-Met1	trnSL-Glu1
yetI	yetI	flvL	spoIIE
gyrB	copP	yfmL	yfmK
prkT	citS	citT	tilS
mapB	hprT	ftsH	treR
yfkJ	yfkA	yfjP	hslO
yfjO	dusC	yfjL	acoR
yacD	malR	cysK	yfiF
linJ

SW 3.1 Genetics

gyrA	yfhF	recX	mutY
yhaZ	yhaO	sbcE	hinT
comK	addB	addA	sbcD
sbcC	hlpB	radA	yisT
med	comZ	cysE	oppA
oppB	oppC	oppD	oppF
mecA	coiA	yjcD	rplK
yjhB	yjlC	ndh	xtmA
xtmB	ykcB	ligD	ligV
ogt	motB	ptsI	splA
splB	kre	rok	pdhB
pdhC	pyrF	priA	rsgA
recG	smc	rnhB	dprA
topA	codV	polC	pnpA
spoIIIE	recA	mutS	mutL
pdxS	lexA	dinL	pcfA
parE	parC	rtp	rapK
phrK	yobHc	yobHm	yozL
recQ	pdxT	sprB	mtbP
yorS	dpoL	yorK	yorI
yoqV	hupN	alkA	adaA
adaB	uvrX	yolD	sprA
ypdQ	exnP	ypvA	yprB
yprA	recU	nth	dnaD
dinG	hbs	gpsA	recS
spcB	scpA	ripX	yqxK
yqjX	polYB	polYA	oxaAB
recN	xseB	xseA	yqhH
comGG	comGF	comGE	comGD
comGC	comGB	comGA	nfo
dnaG	recO	holA	comEC
comEB	comEA	comER	spoIVCA
greA	recDB	rarA	recJ
comN	ruvB	ruvA	ysxA
maf	comC	dnaX	uvrC
mutSB	polX	rnhC	dnaI
dnaB	mutM	polA	pfkA
dnaEC	ytxK	sftA	recR
ytrA	rppG	pgi	comA
comP	comX	comQ	helD
bdbC	bdbD	tpiA	pgk
dnaA	whiA	yvcJ	yvcI
uvrA	uvrB	hag	comFC
comFB	comFA	nfi	hepA
ssbB	rapD	nin	nucA
glyA	rpiB	tsaC	prmC
uvsE	comS	rapF	phrF
ung	aag	rapC	phrC
walJ	dnaC	exoA	ssbA
parB	parA	dnaN	holB
lrpC	topB	nudT	dnaH
dinB	recF	bsuMA	bsuMB
bsuRA	bsuRB	bsuRC	fin
mfd	purB	pcrA	ligA
yefB	yefC	yeeA	gyrB
yfjP

SW 3.1.1 DNA replication

xtmA	xtmB	priA	rnhB
polC	pcfA	rtp	yoqV
exnP	dnaD	dnaG	holA
recDB	dnaX	rnhC	dnaI
dnaB	polA	dnaEC	dnaA
ssbB	dnaC	ssbA	dnaN
holB	topB	dnaH	ligA

SW 3.1.2 DNA replication/ based on similarity

dpoL

yorI

ypdQ

SW 3.1.3 DNA condensation/ segregation

gyrA	smc	topA	codV
spoIIIE	parE	parC	hbs
spcB	scpA	ripX	sftA
whiA	parB	parA	topB
gyrB

SW 3.1.4 DNA restriction/ modification

mtbP	bsuMA	bsuMB	bsuRA
bsuRB	bsuRC	yeeA

SW 3.1.5 DNA repair/ recombination

recX	mutY	sbcE	addB
addA	sbcD	sbcC	hlpB
radA	ligD	ligV	ogt
splA	splB	recG	dprA
pnpA	recA	mutS	mutL
lexA	recQ	sprB	alkA
adaA	adaB	uvrX	yolD
sprA	exnP	yprB	yprA
recU	nth	dinG	recS
yqjX	polYB	polYA	recN
nfo	recO	spoIVCA	recJ
ruvB	ruvA	ysxA	uvrC
mutSB	polX	mutM	polA
recR	rppG	helD	uvrA
uvrB	nfi	ssbB	uvsE
ung	walJ	exoA	ssbA
dnaN	lrpC	nudT	dinB
recF	fin	mfd	pcrA

SW 3.1.5.1 Excision of prophages

sprB

sprA

spoIVCA

SW 3.1.5.2 A/P endonucleases

nth

nfo

exoA

SW 3.1.5.3 Spore-encoded non-homologous end joining system

ligD

ligV

SW 3.1.5.4 Double strand breaks repair

recU

ruvB

ruvA

SW 3.1.5.5 Oxidized guanine (GO) DNA repair system

mutY

mutM

rppG

SW 3.1.5.6 Other proteins

recX	sbcE	addB	addA
sbcD	sbcC	hlpB	radA
ogt	splA	splB	recG
dprA	pnpA	recA	lexA
recQ	alkA	adaA	adaB
uvrX	yolD	exnP	yprB
yprA	dinG	yqjX	polYB
polYA	recN	recO	recJ
ysxA	uvrC	mutSB	polX
polA	recR	helD	uvrA
uvrB	nfi	ssbB	uvsE
ung	ssbA	lrpC	nudT
dinB	recF	fin	mfd
pcrA

SW 3.1.5.7 Mismatch repair (MMR)

SW 3.1.6 DNA repair/ recombination/ based on similarity

yhaZ	yhaO	yjcD	yjhB
dinL	yobHc	yobHm	yozL
recQ	yorK	ypvA	yqxK
rarA	recJ	yvcI	aag
yefB	yefC	yfjP

SW 3.1.7 Genetic competence

comK	addB	addA	sbcD
sbcC	med	comZ	oppA
oppB	oppC	oppD	oppF
mecA	coiA	motB	kre
rok	dprA	pnpA	recA
rapK	phrK	oxaAB	comGG
comGF	comGE	comGD	comGC
comGB	comGA	comEC	comEB
comEA	comER	comN	ysxA
maf	comC	comA	comP
comX	comQ	bdbC	bdbD
yvcJ	hag	comFC	comFB
comFA	ssbB	rapD	nin
nucA	comS	rapF	phrF
rapC	phrC

SW 3.1.8 Genetics/ other/ based on similarity

hinT	yisT	yorS	hupN
xseB	xseA	yqhH	ytxK
hepA

SW 3.1.9 Newly identified competence genes

yfhF	cysE	rplK	yjlC
ndh	ykcB	ptsI	pdhB
pdhC	pyrF	rsgA	pdxS
pdxT	gpsA	yqhH	greA
pfkA	ytrA	pgi	tpiA
pgk	glyA	rpiB	tsaC
prmC	purB

SW 3.2 RNA synthesis and degradation

cspB	mncR	sigM	yhaM
mrnC	raeA	sigH	nusG
xpf	rpoB	rpoC	sigI
rnjA	rnpZA	sigP	sigE
sigG	rpoZ	rnc	rimM
rpoA	rnhB	sigD	nusA
pnpA	rnjB	rny	hfq
nrnB	sigW	yonO	cspD
ypeP	ypdQ	rnpB_RNaseP-bact-b_rnpB	sigX
sigF	rnz	nusB	cshB
sigA	rnrY	sigKn	sigKc
sigZ	sigV	greA	rimF
rph	rnhC	nrnA	rppG
bsnA	rsoA	sigO	rnr
sigL	rho	rpoE	sigY
deaD	rnpA	fbpB	cshA
ndoA	sigB	tex	cspC
rnmV	spoVG	mfd	yfmL

SW 3.2.1 Transcription

sigM	sigH	nusG	xpf
rpoB	rpoC	sigI	rnpZA
sigP	sigE	sigG	rpoZ
rpoA	sigD	nusA	sigW
yonO	sigX	sigF	nusB
sigA	sigKn	sigKc	sigZ
sigV	greA	rsoA	sigO
sigL	rho	rpoE	sigY
sigB	mfd

SW 3.2.1.1 RNA polymerase

rpoB	rpoC	rnpZA	rpoZ
rpoA	rpoE

SW 3.2.1.2 Sigma factors

sigM	sigH	xpf	sigI
sigP	sigE	sigG	sigD
sigW	sigX	sigF	sigA
sigKn	sigKc	sigZ	sigV
rsoA	sigO	sigL	sigY
sigB

SW 3.2.1.3 Transcription elongation/ termination

nusG	nusA	nusB	greA
rho	mfd

SW 3.2.1.4 Prophage/ phage transcription

yonO

SW 3.2.2 RNA chaperones

cspB	hfq	cspD	fbpB
cspC	spoVG

SW 3.2.3 DEAD-box RNA helicases

mncR	yhaM	mrnC	raeA
rnjA	rnc	rimM	rnhB
pnpA	rnjB	rny	nrnB
rnpB_RNaseP-bact-b_rnpB	rnz	rnrY	rph
rnhC	nrnA	rppG	bsnA
rnr	rnpA	ndoA	rnmV

SW 3.2.4.1 Exoribonucleases

yhaM	rnjA	pnpA	nrnB
rph	nrnA	rnr

SW 3.2.4.2 Endoribonucleases

mncR	mrnC	raeA	rnc
rnhB	rnjB	rny	rnz
rnrY	rnhC	bsnA	rnpA
ndoA	rnmV

SW 3.2.4.3 RNA pyrophosphohydrolase

rppG

SW 3.2.4.4 RNases/ Other

rimM	rnpB_RNaseP-bact-b_rnpB

SW 3.2.5 RNase/ based on similarity

SW 3.3 Protein synthesis, modification and degradation

gsaB	SSU-rRNA-bacteria_rrnD-16S	LSU-rRNA-archaea_rrnD-23S	5S-rRNA_rrnD-5S
asnTA	trnD-Ser	trnD-Glu	trnD-Val
trnD-Met	trnD-Asp	trnD-Phe	trnD-Thr
trnD-Tyr	trnD-Trp	trnD-His	trnD-Gln
glyTB	cysTA	leuTA	leuTB
dusB	rpsNB	trnSL-Gly1	queG
trmL	lysS	prkA	SSU-rRNA-bacteria_rrnJ-16S
LSU-rRNA-archaea_rrnJ-23S	srtA	yhcT	5S-rRNA_rrnJ-5S
trnJ-Val	yhcY	trnJ-Thr	trnJ-Lys
trnJ-Leu1	srtN	trnJ-Gly	trnJ-Leu2
trnJ-Arg	prsA	SSU-rRNA-bacteria_rrnO-16S	trnJ-Pro
trnJ-Ala	ecsA	ecsB	SSU-rRNA-bacteria_rrnW-16S
LSU-rRNA-archaea_rrnW-23S	aprE	5S-rRNA_rrnW-5S	ctsR
sipV	mcsB	clpC	pchI
wprA	trnO-Ile	nprB	ipi
gltX	trpS	cysS	mecA
spxH	mrnC	yjbO	prpE
rlmB	trnO-Ala	yjcK	trnSL-Val2
rpmGB	secE	trnE	rplK
rplA	rapA	rplJ	rplL
LSU-rRNA-archaea_rrnO-23S	rulS	htrA	rpsL
rpsG	fusA	ispA	tufA
ykoH	5S-rRNA_rrnO-5S	rpsJ	htpX
kinE	rplC	rplD	spo0E
kinD	clpE	queC	rplW
queD	queE	queF	rplB
rpsS	rplV	kinA	rpsC
rplP	rpmC	rpsQ	rplNA
sipT	kinC	rplX	rplE
rpsNA	nprE	rpsH	bipA
rplF	ctaG	rplR	rsmD
rpsE	ylbL	ylbM	rpmF
rpmD	rplO	bpr	secY
spoIIGA	ileS	lspA	rluD
mapA	infA	fbnA	defA
rpmJ	fmt	rsmB	rlmN
prpC	prkC	rsgA	rpmB
rpsM	rpsK	rnc	ftsY
ylxM	ffh	rpsP	rimM
trmD	rplS	rbgA	rplQ
trmFO	clpQ	clpY	fliY
fliZ	fliP	fliQ	fliR
flhB	flhA	cheA	cheC
cheD	rpsB	truA	tsf
frr	rasP	proS	rimP
rulQ	infB	rbfA	truB
rpsO	mlpA	rplM	tepA
tepJ	rpsI	efpI	miaB
miaA	ynbB	ynaD	SSU-rRNA-bacteria_rrnI-16S
LSU-rRNA-archaea_rrnI-23S	5S-rRNA_rrnI-5S	tatAC	trnI-Asn
trnI-Thr	trnI-Gly	trnI-Arg	trnI-Pro
trnI-Ala	SSU-rRNA-bacteria_rrnH-16S	LSU-rRNA-archaea_rrnH-23S	trnSL-Arg1
5S-rRNA_rrnH-5S	SSU-rRNA-bacteria_rrnG-16S	LSU-rRNA-archaea_rrnG-23S	5S-rRNA_rrnG-5S
yobE	rapK	csaA	desK
ctpA	trnSL-Glu2	trnSL-Val1	trnSL-Thr1
trnSL-Tyr1	trnSL-Gln2	yoqW	serS
bdbB	sunS	bdbA	trnSL-Ser1
ypwA	rlmKB	rnpB_RNaseP-bact-b_rnpB	asnS
cca	cheR	der	rpfA
prsW	ybdK	mecB	resE
ybdM	rluB	ypuI	sipS
ppiB	spoIIAB	S903	rnz
mifM	oxaAB	yqxC	folD
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	efp
sipW	trnSL-Gln1	glpG	rpmGA
cshB	trmK	glyS	glyQ
mpr	era	rnrY	rpsU
mtaB	rsmE	prmA	dnaJ
dnaK	grpE	gpr	rpsT
rsfS	yqeI	rgpH	rapE
yrkQ	tadA	glnJ	sufL
scr_Bacteria-large-SRP_scr	yrrM	rimF	alaS
mnmA	iscSA	tcdA	aspS
hisS	dtd	secDF	tgt
queA	obgE	rpmA	rppA
rplU	spoIVFB	comC	valS
ycbM	engB	lonA	lonB
clpX	tig	trnSL-Arg2	rph
pheT	pheS	rlmBB	rplT
rpmI	infC	tatAD	lytS
thrS	tatCD	pcp	phoR
sppA	trmG	iscSB	rpsD
tyrS	acuA	acuC	natK
ytpR	trmB	rsuA	leuS
bceS	rpmEB	rapJ	trnB-Glu
trnB-Ser2	trnB-Asn	trnB-Ile2	trnB-Gly2
trnB-His	trnB-Phe	trnB-Asp	trnB-Met2
trnB-Ser1	trnB-Met3	trnB-Met1	trnB-Ala
trnB-Pro	trnB-Arg	trnB-Leu2	trnB-Gly1
trnB-Leu1	trnB-Lys	trnB-Thr	trnB-Val
5S-rRNA_rrnB-5S	LSU-rRNA-eukarya_rrnB-23S	SSU-rRNA-bacteria_rrnB-16S	trnSL-Ala1
mstX	kinB	maeL	comP
yueC	yueB	yukAB	yukC
yukD	SSU-rRNA-bacteria_rrnA-16S	htrB	cssS
spxO	liaS	yvrG	trnA-Ile
bdbC	bdbD	ssrA_tmRNA_ssrA	smpB
secG	yvfT	rsbP	trnA-Ala
epsB	epsA	psmA	psmB
trnQ-Arg	clpP	psdS	hisZ
lgt	hprK	LSU-rRNA-archaea_rrnA-23S	ctpB
prfB	secA	degS	ptpZ
ptkA	tkmA	ywpD	rapD
rapB	5S-rRNA_rrnA-5S	ywlG	prpB
tsaC	prmC	prfA	rpmEA
argS	rapF	thrZ	vpr
rlmI	epr	tyrZ	yxjM
rlmA	deaD	tpeK	yclK
htpG	rapC	liaK	liaE
rlmH	rapG	htrC	walK
trnY-Phe	trnY-Asp	trnY-Glu	trnY-Lys
yaaO	rplI	rpsR	rpsF
rsmG	trmF	mnmE	oxaAA
rnpA	rpmH	sipU	dctS
cshA	rsmI	rsbT	rsbU
rsbW	rsbX	trnS-Asn	trnS-Ser
trnS-Glu	trnS-Gln	trnS-Lys	trnS-Leu1
trnS-Leu2	metS	immA	rlbA
rapI	rnmV	rsmA	prtG
ydfH	ydgE	trnE-Arg	trnE-Gly
SSU-rRNA-bacteria_rrnE-16S	LSU-rRNA-archaea_rrnE-23S	5S-rRNA_rrnE-5S	trnE-Met
trnE-Asp	tsaE	tsaB	rimI
tsaD	tatAY	tatCY	groES
groEL	ctc	pth	hslR
gatC	gatA	gatB	rlmCD
rapH	yesM	trnSL-Met1	trnSL-Glu1
spoIIE	yfmL	yfmK	prkT
citS	tilS	mapB	ftsH
yfkJ	yfkA	hslO	yfjO
dusC	yfjL	yacD	linJ

SW 3.3.1 Translation

gsaB	SSU-rRNA-bacteria_rrnD-16S	LSU-rRNA-archaea_rrnD-23S	5S-rRNA_rrnD-5S
asnTA	trnD-Ser	trnD-Glu	trnD-Val
trnD-Met	trnD-Asp	trnD-Phe	trnD-Thr
trnD-Tyr	trnD-Trp	trnD-His	trnD-Gln
glyTB	cysTA	leuTA	leuTB
dusB	rpsNB	trnSL-Gly1	queG
trmL	lysS	SSU-rRNA-bacteria_rrnJ-16S	LSU-rRNA-archaea_rrnJ-23S
yhcT	5S-rRNA_rrnJ-5S	trnJ-Val	trnJ-Thr
trnJ-Lys	trnJ-Leu1	trnJ-Gly	trnJ-Leu2
trnJ-Arg	SSU-rRNA-bacteria_rrnO-16S	trnJ-Pro	trnJ-Ala
SSU-rRNA-bacteria_rrnW-16S	LSU-rRNA-archaea_rrnW-23S	5S-rRNA_rrnW-5S	trnO-Ile
gltX	trpS	cysS	mrnC
yjbO	rlmB	trnO-Ala	yjcK
trnSL-Val2	rpmGB	trnE	rplK
rplA	rplJ	rplL	LSU-rRNA-archaea_rrnO-23S
rulS	rpsL	rpsG	fusA
tufA	5S-rRNA_rrnO-5S	rpsJ	rplC
rplD	queC	rplW	queD
queE	queF	rplB	rpsS
rplV	rpsC	rplP	rpmC
rpsQ	rplNA	rplX	rplE
rpsNA	rpsH	bipA	rplF
rplR	rsmD	rpsE	ylbM
rpmF	rpmD	rplO	ileS
rluD	mapA	infA	fbnA
defA	rpmJ	fmt	rsmB
rlmN	rsgA	rpmB	rpsM
rpsK	rnc	rpsP	rimM
trmD	rplS	rbgA	rplQ
trmFO	rpsB	truA	tsf
frr	proS	rimP	rulQ
infB	rbfA	truB	rpsO
rplM	rpsI	efpI	miaB
miaA	ynbB	ynaD	SSU-rRNA-bacteria_rrnI-16S
LSU-rRNA-archaea_rrnI-23S	5S-rRNA_rrnI-5S	trnI-Asn	trnI-Thr
trnI-Gly	trnI-Arg	trnI-Pro	trnI-Ala
SSU-rRNA-bacteria_rrnH-16S	LSU-rRNA-archaea_rrnH-23S	trnSL-Arg1	5S-rRNA_rrnH-5S
SSU-rRNA-bacteria_rrnG-16S	LSU-rRNA-archaea_rrnG-23S	5S-rRNA_rrnG-5S	trnSL-Glu2
trnSL-Val1	trnSL-Thr1	trnSL-Tyr1	trnSL-Gln2
serS	trnSL-Ser1	rlmKB	rnpB_RNaseP-bact-b_rnpB
asnS	cca	der	rpfA
rluB	ypuI	S903	rnz
mifM	yqxC	folD	efp
trnSL-Gln1	rpmGA	cshB	trmK
glyS	glyQ	era	rnrY
rpsU	mtaB	rsmE	prmA
rpsT	rsfS	yqeI	rgpH
tadA	yrrM	rimF	alaS
mnmA	iscSA	tcdA	aspS
hisS	dtd	tgt	queA
obgE	rpmA	rppA	rplU
valS	engB	trnSL-Arg2	rph
pheT	pheS	rlmBB	rplT
rpmI	infC	thrS	trmG
iscSB	rpsD	tyrS	ytpR
trmB	rsuA	leuS	rpmEB
trnB-Glu	trnB-Ser2	trnB-Asn	trnB-Ile2
trnB-Gly2	trnB-His	trnB-Phe	trnB-Asp
trnB-Met2	trnB-Ser1	trnB-Met3	trnB-Met1
trnB-Ala	trnB-Pro	trnB-Arg	trnB-Leu2
trnB-Gly1	trnB-Leu1	trnB-Lys	trnB-Thr
trnB-Val	5S-rRNA_rrnB-5S	LSU-rRNA-eukarya_rrnB-23S	SSU-rRNA-bacteria_rrnB-16S
trnSL-Ala1	SSU-rRNA-bacteria_rrnA-16S	trnA-Ile	ssrA_tmRNA_ssrA
smpB	trnA-Ala	trnQ-Arg	hisZ
LSU-rRNA-archaea_rrnA-23S	prfB	5S-rRNA_rrnA-5S	ywlG
tsaC	prmC	prfA	rpmEA
argS	thrZ	rlmI	tyrZ
rlmA	deaD	rlmH	trnY-Phe
trnY-Asp	trnY-Glu	trnY-Lys	yaaO
rplI	rpsR	rpsF	rsmG
trmF	mnmE	rnpA	rpmH
cshA	rsmI	trnS-Asn	trnS-Ser
trnS-Glu	trnS-Gln	trnS-Lys	trnS-Leu1
trnS-Leu2	metS	rlbA	rnmV
rsmA	trnE-Arg	trnE-Gly	SSU-rRNA-bacteria_rrnE-16S
LSU-rRNA-archaea_rrnE-23S	5S-rRNA_rrnE-5S	trnE-Met	trnE-Asp
tsaE	tsaB	rimI	tsaD
ctc	pth	hslR	gatC
gatA	gatB	rlmCD	trnSL-Met1
trnSL-Glu1	yfmL	tilS	mapB
yfkA	yfjO	dusC	yfjL

SW 3.3.1.1 Ribosomal RNA

SSU-rRNA-bacteria_rrnD-16S	LSU-rRNA-archaea_rrnD-23S	5S-rRNA_rrnD-5S	SSU-rRNA-bacteria_rrnJ-16S
LSU-rRNA-archaea_rrnJ-23S	5S-rRNA_rrnJ-5S	SSU-rRNA-bacteria_rrnO-16S	SSU-rRNA-bacteria_rrnW-16S
LSU-rRNA-archaea_rrnW-23S	5S-rRNA_rrnW-5S	LSU-rRNA-archaea_rrnO-23S	5S-rRNA_rrnO-5S
SSU-rRNA-bacteria_rrnI-16S	LSU-rRNA-archaea_rrnI-23S	5S-rRNA_rrnI-5S	SSU-rRNA-bacteria_rrnH-16S
LSU-rRNA-archaea_rrnH-23S	5S-rRNA_rrnH-5S	SSU-rRNA-bacteria_rrnG-16S	LSU-rRNA-archaea_rrnG-23S
5S-rRNA_rrnG-5S	5S-rRNA_rrnB-5S	LSU-rRNA-eukarya_rrnB-23S	SSU-rRNA-bacteria_rrnB-16S
SSU-rRNA-bacteria_rrnA-16S	LSU-rRNA-archaea_rrnA-23S	5S-rRNA_rrnA-5S	SSU-rRNA-bacteria_rrnE-16S
LSU-rRNA-archaea_rrnE-23S	5S-rRNA_rrnE-5S

SW 3.3.1.10 Aminoacyl-tRNA synthetases

lysS	gltX	trpS	cysS
ileS	proS	serS	asnS
glyS	glyQ	alaS	aspS
hisS	valS	pheT	pheS
thrS	tyrS	ytpR	leuS
hisZ	argS	thrZ	tyrZ
metS	gatC	gatA	gatB

SW 3.3.1.11 Translation factors

fusA	tufA	bipA	infA
tsf	frr	infB	rbfA
efp	infC	prfB	prfA

SW 3.3.1.12 Translation/ other

mapA	fbnA	defA	mifM
prmA	rsfS	dtd	ssrA_tmRNA_ssrA
smpB	deaD	pth	mapB

SW 3.3.1.13 Translation/ other/ based on similarity

yjcK	rimP	ynaD	yqeI
prmC	rimI	hslR

SW 3.3.1.14 Translation factor modification and maturation

gsaB	efpI	ynbB	ywlG
yaaO	yfkA

SW 3.3.1.2 rRNA modification and maturation

mrnC	rlmB	rnc	rimM
rluB	ypuI	rnrY	rsmE
rlmBB	rsmG	rnmV	rsmA
rlmCD

SW 3.3.1.3 rRNA modification and maturation/ based on similarity

yhcT	yjbO	rsmD	rluD
rsmB	rlmN	rlmKB	yqxC
rimF	rsuA	rlmI	rlmA
rlmH	rsmI	yfjO

SW 3.3.1.4 Ribosomal proteins

rpsNB	rpmGB	rplK	rplA
rplJ	rplL	rulS	rpsL
rpsG	rpsJ	rplC	rplD
rplW	rplB	rpsS	rplV
rpsC	rplP	rpmC	rpsQ
rplNA	rplX	rplE	rpsNA
rpsH	rplF	rplR	rpsE
rpmF	rpmD	rplO	rpmJ
rpmB	rpsM	rpsK	rpsP
rplS	rplQ	rpsB	rpsO
rplM	rpsI	S903	rpmGA
rpsU	rpsT	rpmA	rplU
rplT	rpmI	rpsD	rpmEB
rpmEA	rplI	rpsR	rpsF
rpmH	ctc

SW 3.3.1.5 Ribosomal protein/ based on similarity

rulQ

rpfA

yfjL

SW 3.3.1.6 Ribosome assembly

rsgA	rbgA	der	cshB
era	rgpH	obgE	rppA
engB	cshA	rlbA	yfmL

SW 3.3.1.7 tRNA

asnTA	trnD-Ser	trnD-Glu	trnD-Val
trnD-Met	trnD-Asp	trnD-Phe	trnD-Thr
trnD-Tyr	trnD-Trp	trnD-His	trnD-Gln
glyTB	cysTA	leuTA	leuTB
trnSL-Gly1	trnJ-Val	trnJ-Thr	trnJ-Lys
trnJ-Leu1	trnJ-Gly	trnJ-Leu2	trnJ-Arg
trnJ-Pro	trnJ-Ala	trnO-Ile	trnO-Ala
trnSL-Val2	trnI-Asn	trnI-Thr	trnI-Gly
trnI-Arg	trnI-Pro	trnI-Ala	trnSL-Arg1
trnSL-Glu2	trnSL-Val1	trnSL-Thr1	trnSL-Tyr1
trnSL-Gln2	trnSL-Ser1	trnSL-Gln1	trnSL-Arg2
trnB-Glu	trnB-Ser2	trnB-Asn	trnB-Ile2
trnB-Gly2	trnB-His	trnB-Phe	trnB-Asp
trnB-Met2	trnB-Ser1	trnB-Met3	trnB-Met1
trnB-Ala	trnB-Pro	trnB-Arg	trnB-Leu2
trnB-Gly1	trnB-Leu1	trnB-Lys	trnB-Thr
trnB-Val	trnSL-Ala1	trnA-Ile	trnA-Ala
trnQ-Arg	trnY-Phe	trnY-Asp	trnY-Glu
trnY-Lys	trnS-Asn	trnS-Ser	trnS-Glu
trnS-Gln	trnS-Lys	trnS-Leu1	trnS-Leu2
trnE-Arg	trnE-Gly	trnE-Met	trnE-Asp
trnSL-Met1	trnSL-Glu1

SW 3.3.1.8 tRNA modification and maturation

dusB	queG	trmL	queC
queD	queE	queF	ylbM
fmt	trmD	trmFO	truA
truB	miaB	miaA	rnpB_RNaseP-bact-b_rnpB
cca	rnz	folD	trmK
mtaB	tadA	yrrM	mnmA
iscSA	tcdA	tgt	queA
rph	trmG	iscSB	trmB
tsaC	trmF	mnmE	rnpA
tsaE	tsaB	tsaD	tilS
dusC

SW 3.3.1.9 tRNA modification and maturation/ based on similarity

trnE

SW 3.3.2 Chaperones/ protein folding

bdbB	bdbA	ppiB	dnaJ
dnaK	grpE	tig	bdbC
bdbD	htpG	groES	groEL

SW 3.3.3 Chaperone/ protein folding/ based on similarity

psmA

psmB

hslO

SW 3.3.4 Protein modification

gsaB	prkA	yhcY	srtN
mcsB	pchI	prpE	yjcK
rapA	ykoH	kinE	spo0E
kinD	kinA	kinC	ctaG
mapA	defA	prpC	prkC
fliY	cheA	cheC	cheD
efpI	ynbB	ynaD	rapK
desK	sunS	cheR	ybdK
resE	ybdM	spoIIAB	prmA
rapE	yrkQ	glnJ	ycbM
lytS	pcp	phoR	acuA
acuC	natK	bceS	rapJ
kinB	maeL	comP	cssS
liaS	yvrG	yvfT	rsbP
epsB	epsA	psdS	lgt
hprK	degS	ptpZ	ptkA
tkmA	ywpD	rapD	rapB
ywlG	prpB	prmC	rapF
yxjM	tpeK	yclK	rapC
liaE	rapG	walK	yaaO
dctS	rsbT	rsbU	rsbW
rsbX	rapI	ydfH	ydgE
tsaE	rimI	rapH	yesM
spoIIE	yfmK	prkT	citS
mapB	yfkJ	yfkA	linJ

SW 3.3.4.1 Protein maturation

ctaG	mapA	defA	lgt
mapB

SW 3.3.4.2 Protein kinases

prkA	yhcY	mcsB	ykoH
kinE	kinD	kinA	kinC
prkC	cheA	desK	ybdK
resE	ybdM	spoIIAB	yrkQ
glnJ	ycbM	lytS	phoR
natK	bceS	kinB	maeL
comP	cssS	liaS	yvrG
yvfT	epsB	epsA	psdS
hprK	degS	ptkA	tkmA
ywpD	yxjM	tpeK	yclK
walK	dctS	rsbT	rsbW
ydfH	tsaE	yesM	prkT
citS	linJ

SW 3.3.4.4 Protein phosphatases

pchI	prpE	rapA	spo0E
prpC	fliY	cheC	rapK
rapE	rapJ	rsbP	ptpZ
rapD	rapB	prpB	rapF
rapC	rapG	rsbU	rsbX
rapI	rapH	spoIIE	yfkJ

SW 3.3.4.5 Protein acetylases/ deacetylases

srtN	acuA	acuC	ydgE
yfmK

SW 3.3.4.6 Protein acetylase/ deacetylase/ based on similarity

yjcK

ynaD

rimI

SW 3.3.4.7 Protein deaminase

cheD

SW 3.3.4.8 Protein modification/ other

gsaB	efpI	ynbB	sunS
cheR	prmA	pcp	ywlG
prmC	liaE	yaaO	yfkA

SW 3.3.5 Protein secretion

srtA	prsA	ecsA	ecsB
sipV	secE	sipT	secY
lspA	rnc	ftsY	ylxM
ffh	fliZ	fliP	fliQ
fliR	flhB	flhA	tatAC
csaA	sipS	oxaAB	spoIIIAH
spoIIIAG	spoIIIAF	spoIIIAE	spoIIIAD
spoIIIAC	spoIIIAB	sipW	scr_Bacteria-large-SRP_scr
secDF	comC	tatAD	tatCD
sppA	mstX	yueC	yueB
yukAB	yukC	yukD	secG
secA	oxaAA	sipU	tatAY
tatCY

SW 3.3.6 Protein secretion/ based on similarity

aprE	ctsR	clpC	wprA
nprB	ipi	mecA	spxH
htrA	ispA	htpX	clpE
nprE	ylbL	bpr	spoIIGA
clpQ	clpY	rasP	mlpA
tepA	tepJ	ctpA	ypwA
prsW	mecB	glpG	mpr
gpr	sufL	rppA	spoIVFB
lonA	lonB	clpX	htrB
spxO	clpP	ctpB	vpr
epr	liaK	htrC	immA
prtG	ftsH

SW 3.3.7.1 Protein quality control

SW 3.3.7.2 Extracellular feeding proteases

aprE	nprB	nprE	bpr
mpr	vpr	epr

SW 3.3.7.3 Proteolysis during sporulation/ germination

spoIIGA	tepA	tepJ	gpr
spoIVFB

SW 3.3.7.4 Additional proteins involved in proteolysis

ctsR	clpC	ipi	mecA
spxH	ispA	htpX	clpE
ylbL	clpQ	clpY	rasP
mlpA	ctpA	ypwA	prsW
mecB	glpG	sufL	rppA
lonA	lonB	clpX	spxO
clpP	ctpB	liaK	immA
prtG	ftsH

SW 3.4 Regulation of gene expression

linK	padR	yfiR	yfiV
perR	yazB	senS	ygzD
yhbI	yhcF	glpP	yhcY
yhcZ	nsrR	citR	yhdI
asiMB	asiMA	sigM	cueR
bmrB	scoC	ecsA	ecsB
yhgD	ctsR	comK	mcsA
yhjH	ntdR	mcsB	pchI
farP	yisR	iolQ	yisV
yizB	oppA	oppB	oppC
oppD	oppF	spxA	pepF
sigH	manR	manP	exuR
rapA	phrA	xre	xpf
ohrR	rsbRB	ykoG	ykoH
tnrA	ykoM	sigI	rsgI
htpK	kinE	spo0E	kinD
mhqR	ykvN	ykvZ	glcT
ptsG	ptsH	splA	kinA
cheV	abbA	ccpC	rok
fruR	abhA	kinC	sigP
sigQ	ricF	gerR	spoIIGA
sigE	sigG	pyrR	remA
fapR	ylqB	codY	cheY
cheA	sigD	swrB	rasP
ymfC	ricA	pksA	salA
kbaA	glnR	glnA	xylR
lexA	spo0D	yneI	citB
ftsR	gltC	yozG	yoaU
yobD	rapK	phrK	yobQ
yobS	czrA	desK	desR
btr	bsrB_6S_ssrSA	rsbRC	arxR
murR	yotL	sigW	rsiW
yopS	yopO	yonR	adaA
ypoP	silP	ybzH	degR
kdgR	birA	mtrB	ybdJ
prsW	gudB	ybdK	rsiX
sigX	resE	resD	sigF
spoIIAB	spoIIAA	fur	ansR
bmrR	bkdR	spo0A	spoIVB
argR	spoIIIAA	mntR	sinI
sinR	rsbRD	mgsR	zur
ybfI	sigA	ppsR	ccpN
hrcA	sda	sigKn	spoIVCA
arsR	rapE	phrE	ybfP
yqaG	yqaF	sknR	gamR
sigKc	yrkQ	yrkP	bltR
czcR	gltR	azlB	sigZ
yraN	glnJ	adhR	glnL
levE	levR	sigV	rsiV
bscR	garR	cymR	bsrA_6S_ssrSB
bofC	rtpA	niaR	thrR
obgE	spo0B	spoIVFB	spoIVFA
ycbL	ycbM	ysmB	gerE
fadR	ysfB	ysdB	rplT
lytT	lytS	nrdR	ytcD
phoR	phoP	ytoI	lmrA
ascR	ccpA	natK	natR
ytzE	rmgR	msmR	blrA
bceS	bceR	ytrA	luxS
rapJ	gbsR	bslA	rhaR
yugG	kinB	kapB	kapD
bofA	maeL	maeM	comA
comP	comX	comQ	degQ
adeR	yceK	paiB	lipA
pucR	frlR	yuzN	mdtR
yusT	ycgE	cssR	cssS
liaR	liaS	liaF	yvrG
yvrH	rsoA	sigO	rsiO
csoR	yvaF	yvzC	rghRA
rghRB	catR	yvaV	sdpR
opcR	ycgK	cggR	araR
yvbU	yvfU	yvfT	rsbQ
rsbP	ganR	lutR	sigL
slrR	yvdT	putR	mdxR
psdS	psdR	crh	whiA
hprK	nagR	yvkB	swrAAc
swrAAn	ctpB	ftsX	ftsE
csrA	flgM	degU	degS
rbsR	alsR	chrS	ywqM
glcR	ywpD	rapD	spoIIID
ywoH	glnK	mta	rapB
hxlR	spoIIR	spo0F	arfM
fnr	rapF	phrF	ywhA
psrF	cysL	csfB	ycxD
rocG	bslB	ywzG	sacP
sacT	slrC	slrA	cidR
sacX	sacY	tyrZR	bsdA
licB	licR	yxlD	yxlC
sigY	yxjO	yxjM	yxjL
licT	bglP	hutP	deoR
tpeK	tpeJ	yclJ	iolR
yclK	yxbF	rapC	phrC
qdoR	yxaD	gntR	yydK
liaM	liaL	liaK	liaE
liaD	rapG	phrG	rocR
walI	walH	walK	walR
hypR	ycnC	yybE	yybA
yyaN	ccpB	yczG	gabR
cutR	mtlA	pxpB	pxpC
pxpR	mtlR	ricT	dctS
dctR	rsbRA	rsbS	rsbT
abrB	rsbU	rsbV	rsbW
sigB	rsbX	ydcH	immA
immR	rapI	phrI	lrpA
lrpB	cdnL	ydeC	ydeE
ydeF	ydeL	ydeP	ydeS
aseR	ydfD	ydfF	ydfH
ydfI	ydfL	ydgC	ydgG
ydgJ	ydhC	purR	gmuR
rex	gutR	fin	spoVT
yezC	yerC	yerO	rapH
phrH	yezE	yesM	yesN
rhgR	yetI	yetI	flvL
spoIIE	copP	citS	citT
tilS	hprT	treR	acoR
malR	cysK	yfiF	linJ

SW 3.4.1 Sigma factors and their control

asiMB	asiMA	sigM	ecsA
ecsB	sigH	xpf	rsbRB
sigI	rsgI	sigP	sigQ
spoIIGA	sigE	sigG	sigD
swrB	rasP	bsrB_6S_ssrSA	rsbRC
sigW	rsiW	prsW	rsiX
sigX	sigF	spoIIAB	spoIIAA
spoIVB	spoIIIAA	rsbRD	sigA
sigKn	spoIVCA	sigKc	sigZ
sigV	rsiV	bsrA_6S_ssrSB	bofC
spoIVFB	spoIVFA	ysdB	blrA
bofA	rsoA	sigO	rsiO
rsbQ	rsbP	sigL	ctpB
flgM	spoIIR	psrF	csfB
yxlD	yxlC	sigY	rsbRA
rsbS	rsbT	rsbU	rsbV
rsbW	sigB	rsbX	fin
yetI	yetI	spoIIE

SW 3.4.1.1 Sigma factors

sigM	sigH	xpf	sigI
sigP	sigE	sigG	sigD
sigW	sigX	sigF	sigA
sigKn	sigKc	sigZ	sigV
rsoA	sigO	sigL	sigY
sigB

SW 3.4.1.2 Control of sigma factors

asiMB	asiMA	ecsA	ecsB
rsbRB	rsgI	sigQ	spoIIGA
swrB	rasP	bsrB_6S_ssrSA	rsbRC
rsiW	prsW	rsiX	spoIIAB
spoIIAA	spoIVB	spoIIIAA	rsbRD
spoIVCA	rsiV	bsrA_6S_ssrSB	bofC
spoIVFB	spoIVFA	ysdB	blrA
bofA	rsiO	rsbQ	rsbP
ctpB	flgM	spoIIR	psrF
csfB	yxlD	yxlC	rsbRA
rsbS	rsbT	rsbU	rsbV
rsbW	rsbX	fin	yetI
yetI	spoIIE

SW 3.4.2 Transcription factors and their control

linK	padR	yfiR	yfiV
perR	yazB	senS	ygzD
yhbI	yhcF	glpP	yhcY
yhcZ	nsrR	citR	yhdI
cueR	scoC	yhgD	ctsR
comK	mcsA	yhjH	ntdR
mcsB	yisR	iolQ	yisV
yizB	spxA	manR	manP
exuR	rapA	phrA	xre
ohrR	ykoG	ykoH	tnrA
ykoM	htpK	kinE	kinD
mhqR	ykvN	ykvZ	glcT
ptsG	ptsH	splA	kinA
cheV	abbA	ccpC	rok
fruR	kinC	ricF	gerR
pyrR	remA	fapR	codY
cheY	cheA	ymfC	ricA
pksA	salA	glnR	glnA
xylR	lexA	yneI	ftsR
gltC	yozG	yoaU	yobD
rapK	phrK	yobQ	yobS
czrA	desK	desR	btr
arxR	murR	yotL	yopS
yopO	yonR	adaA	ypoP
silP	ybzH	degR	kdgR
birA	mtrB	ybdJ	gudB
ybdK	resE	resD	fur
ansR	bmrR	bkdR	spo0A
argR	mntR	sinI	sinR
mgsR	zur	ybfI	ppsR
ccpN	hrcA	arsR	rapE
phrE	ybfP	yqaG	yqaF
sknR	gamR	yrkQ	yrkP
bltR	czcR	gltR	azlB
yraN	glnJ	adhR	glnL
levE	levR	bscR	garR
cymR	rtpA	niaR	thrR
ycbL	ycbM	ysmB	gerE
fadR	ysfB	lytT	lytS
nrdR	ytcD	phoR	phoP
ytoI	lmrA	ascR	ccpA
natK	natR	ytzE	rmgR
msmR	bceS	bceR	ytrA
rapJ	gbsR	rhaR	yugG
kinB	maeL	maeM	comA
comP	degQ	adeR	yceK
paiB	pucR	frlR	yuzN
mdtR	yusT	ycgE	cssR
cssS	liaR	liaS	liaF
yvrG	yvrH	csoR	yvaF
yvzC	rghRA	rghRB	catR
yvaV	sdpR	opcR	ycgK
cggR	araR	yvbU	yvfU
yvfT	ganR	lutR	slrR
yvdT	putR	mdxR	psdS
psdR	crh	whiA	hprK
nagR	yvkB	swrAAc	swrAAn
degU	degS	rbsR	alsR
chrS	ywqM	glcR	ywpD
rapD	spoIIID	ywoH	glnK
mta	rapB	hxlR	arfM
fnr	rapF	phrF	ywhA
cysL	ycxD	rocG	ywzG
sacP	sacT	slrC	slrA
cidR	sacX	sacY	tyrZR
bsdA	licB	licR	yxjO
yxjM	yxjL	licT	bglP
hutP	deoR	tpeK	tpeJ
yclJ	iolR	yclK	yxbF
rapC	phrC	qdoR	yxaD
gntR	yydK	liaM	liaL
liaK	liaE	liaD	rapG
phrG	rocR	walI	walH
walK	walR	hypR	ycnC
yybE	yybA	yyaN	ccpB
yczG	gabR	cutR	mtlA
pxpR	mtlR	dctS	dctR
ydcH	immA	immR	rapI
phrI	lrpA	lrpB	cdnL
ydeC	ydeE	ydeF	ydeL
ydeP	ydeS	aseR	ydfD
ydfF	ydfH	ydfI	ydfL
ydgC	ydgG	ydgJ	ydhC
purR	gmuR	rex	gutR
spoVT	yezC	yerC	yerO
rapH	phrH	yezE	yesM
yesN	rhgR	flvL	copP
citS	citT	tilS	hprT
treR	acoR	malR	cysK
yfiF	linJ

SW 3.4.2.1 Two-component system response regulators

linK	yhcZ	ykoG	cheY
yneI	desR	ybdJ	resD
spo0A	yrkP	glnL	ycbL
lytT	phoP	natR	bceR
maeM	comA	cssR	liaR
yvrH	yvfU	psdR	degU
yxjL	tpeJ	yclJ	walR
dctR	ydfI	yesN	citT

SW 3.4.2.2 Control of two-component response regulators

yhcY	rapA	phrA	ykoH
kinE	kinD	kinA	cheV
kinC	cheA	rapK	phrK
desK	degR	ybdK	resE
rapE	phrE	yrkQ	glnJ
ycbM	lytS	phoR	natK
bceS	rapJ	kinB	maeL
comP	degQ	cssS	liaS
liaF	yvrG	yvfT	psdS
swrAAc	swrAAn	degS	ywpD
rapD	rapB	rapF	phrF
yxjM	tpeK	yclK	rapC
phrC	liaM	liaL	liaK
liaE	liaD	rapG	phrG
walI	walH	walK	dctS
rapI	ydfH	rapH	phrH
yesM	citS	linJ

SW 3.4.2.2.1 Two-component sensor kinase

yhcY	ykoH	kinE	kinD
kinA	kinC	cheA	desK
ybdK	resE	yrkQ	glnJ
ycbM	lytS	phoR	natK
bceS	kinB	maeL	comP
cssS	liaS	yvrG	yvfT
psdS	degS	ywpD	yxjM
tpeK	yclK	walK	dctS
ydfH	yesM	citS	linJ

SW 3.4.2.2.2 Response regulator aspartate phosphatase

rapA	rapK	rapE	rapJ
rapD	rapB	rapF	rapC
rapG	rapI	rapH

SW 3.4.2.2.3 Control of response regulators/ other

phrA	cheV	phrK	degR
phrE	degQ	liaF	swrAAc
swrAAn	phrF	phrC	liaM
liaL	liaK	liaE	liaD
phrG	walI	walH	phrH

SW 3.4.2.3 PRD-type regulators

manR	glcT	levR	sacT
sacY	licR	licT	mtlR

SW 3.4.2.4 Control of PRD-type regulators

manP	ptsG	levE	sacP
sacX	licB	bglP	mtlA

SW 3.4.2.5 Transcription factors/ other

padR	perR	senS	glpP
nsrR	citR	cueR	scoC
ctsR	comK	ntdR	iolQ
spxA	exuR	xre	ohrR
tnrA	htpK	mhqR	splA
ccpC	rok	fruR	gerR
pyrR	remA	fapR	codY
pksA	glnR	xylR	lexA
ftsR	gltC	czrA	btr
arxR	murR	adaA	silP
kdgR	birA	mtrB	fur
ansR	bmrR	bkdR	argR
mntR	sinR	mgsR	zur
ccpN	hrcA	arsR	sknR
gamR	bltR	gltR	azlB
adhR	bscR	garR	cymR
niaR	thrR	gerE	fadR
nrdR	lmrA	ascR	ccpA
msmR	ytrA	gbsR	rhaR
yugG	adeR	paiB	pucR
frlR	mdtR	csoR	rghRA
catR	sdpR	opcR	cggR
araR	ganR	lutR	slrR
putR	nagR	rbsR	alsR
chrS	glcR	spoIIID	mta
hxlR	arfM	fnr	cysL
slrC	tyrZR	bsdA	hutP
deoR	iolR	qdoR	gntR
rocR	hypR	ccpB	gabR
cutR	pxpR	ydcH	immR
lrpA	lrpB	aseR	purR
gmuR	rex	gutR	spoVT
rhgR	flvL	copP	tilS
hprT	treR	acoR	malR

SW 3.4.2.6 Transcription factor/ other/ based on similarity

yfiR	yfiV	yazB	ygzD
yhbI	yhcF	yhdI	yhgD
yhjH	yisR	yisV	yizB
ykoM	ykvN	ykvZ	ymfC
yozG	yoaU	yobD	yobQ
yobS	yotL	yopS	yopO
yonR	ypoP	ybzH	ybfI
ybfP	yqaG	yqaF	czcR
yraN	ysmB	ysfB	ytcD
ytoI	ytzE	rmgR	yceK
yuzN	yusT	ycgE	yvaF
yvzC	rghRB	yvaV	ycgK
yvbU	yvdT	mdxR	whiA
yvkB	ywqM	ywoH	ywhA
ycxD	ywzG	cidR	yxjO
yxbF	yxaD	yydK	ycnC
yybE	yybA	yyaN	yczG
cdnL	ydeC	ydeE	ydeF
ydeL	ydeP	ydeS	ydfD
ydfF	ydfL	ydgC	ydgG
ydgJ	ydhC	yezC	yerC
yerO	yezE	yfiF

SW 3.4.2.7 Control of transcription factor (other than two-component system)

mcsA	mcsB	ptsH	abbA
ricF	ricA	salA	glnA
gudB	sinI	ppsR	rtpA
crh	hprK	glnK	rocG
slrA	immA	rapI	phrI
tilS	hprT	cysK

SW 3.4.3 Trigger enzyme

manP	ptsG	glnA	citB
adaA	birA	gudB	levE
lipA	rocG	sacP	sacX
licB	bglP	mtlA	cysK

SW 3.4.3.1 Trigger enzymes of the PTS that control the activity of PRD-containing transcription factors

manP	ptsG	levE	sacP
sacX	licB	bglP	mtlA

SW 3.4.3.2 Trigger enzymes that control gene expression by protein-protein interaction with transcription factors

SW 3.4.3.3 Trigger enzymes that act directly as transcription factors by binding DNA

adaA

birA

SW 3.4.3.4 Trigger enzyme that acts by binding of a specific RNA element

citB

SW 3.4.3.5 Trigger enzymes that control transcription in a yet unknown way

lipA

SW 3.4.4 RNA binding regulators

glpP	glcT	pyrR	citB
mtrB	rplT	csrA	sacT
sacY	licT	hutP

SW 3.4.5 Regulators of core metabolism

tnrA	ccpC	codY	ccpN
cymR	phoP	ccpA	cggR

SW 3.4.6 Transition state regulators

scoC	abhA	salA	sinI
sinR	slrR	slrA	abrB

SW 3.4.7 phosphorelay

pchI	farP	oppA	oppB
oppC	oppD	oppF	pepF
rapA	phrA	kinE	spo0E
kinD	kinA	kinC	ricF
ylqB	ricA	kbaA	spo0D
spo0A	sda	rapE	phrE
obgE	spo0B	bslA	kinB
kapB	kapD	rghRA	ftsX
ftsE	rapB	spo0F	bslB
pxpB	pxpC	pxpR	ricT
lrpA	lrpB	rapH	phrH

SW 3.4.7.1 The kinases

kinE	kinD	kinA	kinC
kinB

SW 3.4.7.2 Proteins controlling the activity of the kinases

ylqB	kbaA	sda	bslA
kapB	bslB	pxpB	pxpC

SW 3.4.7.3 The phosphotransferases

spo0B

spo0F

SW 3.4.7.4 The ultimate target

spo0A

SW 3.4.7.5 Phosphatases controlling the phosphorelay

pchI	rapA	spo0E	spo0D
rapE	rapB	rapH

SW 3.4.7.6 Other protein controlling the activity of the phosphorelay

phrA	ricF	ricA	phrE
ricT	phrH

SW 3.4.8 Quorum sensing

rapA	phrA	rapK	phrK
rapE	phrE	luxS	comA
comP	comX	comQ	rapD
rapF	phrF	rapC	phrC
rapG	phrG	rapI	phrI
rapH	phrH

SW 3.4.9 Other regulators

bmrB

SW 3.5 Targets of second messengers

khtT	kefQ	mgtE	ykuI
ykuL	ktrC	guaB	gmk
rbgA	infB	hflX	dgrA
dnaG	era	pgpH	ydaO-yuaA_swdA
ktrA	opuCA	zinU	gdpP
darA	epsK	ydaO-yuaA_swaO	kimA
hprT

SW 3.5.1 Targets of c-di-AMP

khtT	kefQ	mgtE	ykuL
ktrC	ydaO-yuaA_swdA	ktrA	opuCA
darA	ydaO-yuaA_swaO	kimA

SW 3.5.2 Targets of c-di-GMP

ykuI

dgrA

epsK

SW 3.5.3 Targets of (p)ppGpp

guaB	gmk	rbgA	infB
hflX	dnaG	era	pgpH
gdpP	hprT

SW 3.5.4 Targets of ZTP

zinU

SW 4 Lifestyles

padR	yfiS	bstA	yfiU
yfhD	yfhE	yfhF	yfhI
sspK	yfhK	spdL	ephM
csbB	yfhO	yfhS	fabL
sspE	bcp	perR	spo0M
ygzA	ygzC	ygaK	katA
yhbB	yhbE	yhbF	prkA
yhbH	cspB	yhcM	yhcN
yhcO	yhcQ	yhcT	yhcV
yhdB	yhdC	nsrR	ygxB
spoVR	yhdF	asiMB	asiMA
sigM	akrN	plsC	cueR
crcBA	crcBB	mscY	nhaX
bmrC	bmrD	yheF	sspB
spaD	spaC	yhaX	yhaL
sscA	yhaJ	yhzF	yhfA
pbpF	yhfM	yhfN	hemAT
yhfW	yhxC	ctsR	comK
yhxD	mcsA	ntdC	ntdB
ntdA	ntdR	yhjO	mcsB
yhjQ	yhjR	addB	addA
sbcD	sbcC	gerPF	gerPE
gerPD	clpC	gerPC	gerPB
gerPA	pchI	yisJ	yisN
radA	asnO	farP	disA
yisY	yisZ	yitA	yitB
slpH	slpS	yitE	yitF
yitG	yacL	ispD	yitQ
yitT	yizC	ispF	yitZ
yjzC	yjaU	yjaV	med
comZ	yjzB	fabF	yjaZ
yjbA	oppA	oppB	oppC
oppD	oppF	yjbB	yjbC
spxA	yjbE	mecA	coiA
pepF	yizD	spxH	yjbI
cotO	cotZ	cotY	cotX
cotW	cotV	yjcA	yjzK
yjcZ	spoVIF	yjzE	yjdH
cotT	cotT	yjfA	yjgB
yjgC	yjgD	ppuG	yjmC
yjmD	uxuA	uxuB	exuT
exuR	uxaB	uxaA	yjnA
yjoB	rapA	phrA	xpdC
spoIISC	spoIISB	spoIISA	mhqA
htrA	ldcA	pgl	ddaH
hmpA	ykzH	ykjA	proA
ohrA	ohrR	ohrB	guaN
ykzD	ykoN	ykoP	ykoQ
ykoS	ykoT	ligD	ligV
ykoY	sigI	rsgI	sspD
ktrD	ykzP	ykzE	kinE
spo0E	kinD	mhqR	motB
motA	clpE	ykvI	ykvP
ykvQ	ykvU	stoA	papB
splA	splB	ykwB	mcpC
kinA	cheV	kre	ykuC
ltdD	ykuS	mscT	ykuV
rok	sppO	yaaC	skiW
skiX	skiY	skiZ	ampS
ykpC	mreBH	abhA	kinC
ktrC	ykzV	speA	ykzI
bipA	ylaJ	ylaK	glsB
ctaA	ylbB	ylbC	ylbD
ylbE	ricF	spoVV	gerR
bshC	spoVD	spoVE	murG
murB	divIB	ylxW	ylxX
sbp	spoIIGA	sigG	ylmC
ylyA	fbnA	tcaB	remA
prkC	spoVM	ftsY	ylqB
ylqH	dprA	flgB	flgC
fliE	fliF	fliG	fliH
fliI	fliJ	fliK	flgD
flgE	swrD	fliL	fliM
fliY	cheY	fliZ	fliP
fliQ	fliR	flhB	flhA
flhF	flhG	cheB	cheA
cheW	cheC	cheD	sigD
swrB	ylxP	pnpA	ymxH
spoVFA	spoVFB	asd	dapG
dapA	tepA	tepJ	spoIIIE
bcbE	efpI	ymfJ	rodZ
recA	pbpX	rny	pdeB
spoVS	ricA	cotE	ybaK
pksB	pksC	pksD	pksE
acpK	cwlD	pksF	pksG
pksH	pksI	pksJ	pksL
pksM	pksN	pksR	pksS
ymzB	ymaD	ebrB	ebrA
ymaG	gerD	ymaF	kbaA
cwlC	spoVK	pdaB	alrB
yncE	cotU	cotC	yndA
ynzB	yndD	yndE	yndF
pghL	yndM	fosB	spo0D
cotM	sspP	sspO	ynzL
sspN	sspT	ynfE	yngC
nrnB	ldeE	ldeF	ldeG
lgeHB	ldeHA	ldeI	ldeJ
ynzE	yngK	yngL	ppsE
ppsD	ppsC	ppsB	ppsA
proJ	proH	yoxC	yoxB
yoaA	yoaF	yoaG	yozQ
yoaH	yoaI	exlX	yoaM
oxdD	yoaQ	yozT	yozF
yoaR	yoaU	yoaW	penP
yppS	rapK	phrK	S718_716_asrE
S717_BsrG	yobJ	rttM	rttL
yobN	yobW	czrA	yocB
yocD	desE	desK	desR
azoJ	yocK	yocL	yoyB
yocM	yozN	yocN	yozO
ybbC	sqhC	sodF	sodC
yojK	cdaS	mdtK	bshBB
gerT	yojB	arxR	noxC
yodD	yodE	yodH	yodI
yoyE	yodL	yozD	yoyF
yodN	yozE	yokU	kamA
kamB	yodQ	yodR	yodS
yodT	yoyG	yoyG	cgeE
cgeD	cgeC	cgeA	cgeB
spsMn	sprB	sspC	sigW
rsiW	yoyJ	spbT	sunS
sunT	sunA	sunI	bsrG_S809_BsrG
S810_asrG	yokJ	yokI	yokG
aacD	spsMc	msrB	msrA
dinF	silP	yplQ	brxA
bsaA	metAA	ugtP	cspD
ypzA	ypeQ	ypeP	sspL
ypzF	bpsB	bpsA	yptA
skfA	ypzG	cotD	skfB
ypqA	yppG	yppD	sspM
yppC	recU	ponA	skfC
skfE	bshA	bshBA	skfF
ypjB	cheR	spoIVA	ypzH
yphB	yphA	ypzI	ypfB
dgrA	sleC	sleB	ypdA
ypbG	rsiX	sigX	spmB
spmA	dacB	ypuD	ypzC
ypzD	ypuA	lysA	spoVAF
spoVAEA	spoVAEB	spoVAD	spoVAC
spoVAB	spoVAA	sigF	spoIIAB
spoIIAA	csgA	dacF	spoIIM
ybxH	mciZ	ybxI	yqjV
cypC	yqjM	yqjL	ybyB
oxaAB	yqjC	yqjB	brxB
bmrU	bmr	bmrR	mmgF
mmgE	mmgD	mmgC	mmgB
mmgA	spo0A	spoIVB	ybeF
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
yqhV	efp	papA	yqhR
yqhQ	yqhP	yqhO	yqhH
yqhG	sinI	sinR	tasA
sipW	tapA	yqzG	spoIIT
comGG	comGF	comGE	comGD
comGC	comGB	comGA	yqxL
sleL	yqhB	rsbRD	mgsR
yqgO	yqgE	sodA	yqfZ
ispG	yqfX	yqfT	yqfQ
yqfD	yqfC	yqfB	floA
ybfJ	nfeDA	mtaB	rsmE
prmA	dnaJ	dnaK	grpE
hrcA	yqxA	spoIIP	gpr
pssA	comEC	comEB	comEA
comER	yaaI	ybfM	sda
cwlH	psd	yqeC	sigKn
spoIVCA	arsC	arsB	yqcK
arsR	yqcI	rapE	phrE
rttG	rttF	ybfO	ybfP
txpA	ratA_ratA	ybfQ	S977
yqaO	yqaN	yqzO	sigKc
ybgB	yrzN	yrkC	yrdP
czcD	cypA	aadK	yraG
yraF	adhB	yraE	yraD
adhR	adhA	sufL	sigV
rsiV	oatA	yrhK	cypB
bscR	yrhH	yrzA	yrrS
pbpI	yrrI	glnQ	glnH
glnM	glnP	yrzQ	yrzR
yrrD	yrzK	secDF	comN
spoVB	yrbG	ycbJ	yrzE
bofC	csbX	alaP	sgpA
safA	obgE	spo0B	spoIVFB
spoIVFA	minD	minC	mreD
mreC	mreB	ysxA	maf
spoIIB	comC	cotN	spoVID
lonA	lonB	cotQ	ysnF
gerM	gerE	ycbP	trxA
cwlJ	ycbR	sspI	ysdB
ytxC	speD	ytbD	spcF
phoR	phoP	ytwI	ytvI
ytrH	ytrI	lmrB	lmrA
ytkL	tpx	gerW	ytfI
yteJ	sppA	sspA	refZ
motS	motP	brxJ	ytxH
ytxG	ytpQ	ytnP	ytzH
ythQ	ythP	opuD	yteV
rmgT	ycdA	ytvB	yttB
bceB	bceA	bceS	bceR
ytrF	ytrE	ytrD	ytrC
ytrB	ytrA	ytzC	tbcS
ytpA	ytlA	ytlC	ytlD
rppG	ytkC	dps	luxS
ytjA	rpmEB	ythA	ythB
ytzL	yteA	ytdA	ytcA
ytcB	ytcC	cotOO	cotS
cotSA	cotI	ytaB	glgP
ycdF	glgA	glgD	glgC
glgB	ycdG	yuaI	floT
nfeDB	gbsB	gbsA	gbsR
bslA	ktrA	ktrB	yubD
cdoA	tlpB	mcpA	yceC
tlpA	mcpB	tgl	yugU
yugT	yugS	yugP	yceD
yuzI	mstX	kbfO	yuzA
yceE	yugF	kinB	kapB
kapD	bofA	yceF	yuxJ
yceG	yufS	yceH	comA
comP	comX	comQ	degQ
cotIC	pdeH	yueG	yuzE
yuzF	yukD	yceJ	spsC
yumB	opuAA	opuAB	cotNH
yutG	opuAC	yutC	lytH
fisB	yunC	sspG	yurS
glxB	yurZ	yusI	yuzL
putM	yuzM	yusN	mdtR
mdtP	mdr	cotNW	mrgA
htrB	cssR	cssS	gerAA
gerAB	gerAC	ycgF	liaR
liaS	liaF	liaG	liaH
liaI	yvqJ	ycgG	yvrE
rsoA	sigO	yvrJ	oxdC
ycgH	rsiO	ycgI	sspJ
pgoN	yvgO	nadE	bdbC
bdbD	cadA	copA	copZ
csoR	tmrB	iolW	azoRB
yvaC	yvaE	rnr	estA
yvaM	rghRA	catR	yvaQ
opuBD	opuBC	opuBB	opuBA
sdpA	sdpB	spbC	sdpI
sdpR	opuCD	opuCC	opuCB
opuCA	opcR	yvbG	cah
ycgL	epsO	epsN	epsM
epsL	epsK	epsJ	epsI
epsH	epsG	epsF	epsE
epsD	epsC	epsB	epsA
slrR	padC	racX	pbpE
aspP	yvdQ	cotNP	cotR
clpP	ycgQ	psdB	psdA
psdS	psdR	ycgR	yvcJ
trxB	bmrA	yvcA	lgt
yvnB	pchE	yvlD	yvlC
yvlB	yvlA	yvzB	csbA
yvkA	swrAAc	swrAAn	ctpB
ftsX	ftsE	hpf	yvzG
fliT	fliS	fliD	yvyC
hag	csrA	fliW	flgL
flgK	flgN	flgM	yvyF
comFC	comFB	comFA	degU
tuaH	tuaG	tuaF	lytC
tagU	gtaB	gerBA	gerBB
gerBC	ywtG	tagT	ywsB
ywrK	ywrJ	cotB	cotH
NA	ywrE	chrS	chrB
chrA	yckC	nfi	rttO
rttN	ywqI	ywqH	ptpZ
ptkA	yckD	tkmA	ssbB
mscL	rapD	flhP	flhO
mbl	spoIIID	usd	nin
ywoG	ywoD	ywoC	bcrC
nucA	ywnJ	spoIIQ	ywnH
ywnG	mta	tlpC	csbD
ywmF	rapB	hxlB	ywmE
spoIID	ywmB	hxlA	ywmA
hxlR	ywlB	spoIIR	ywkF
srfAA	rho	spo0F	srfAB
clsB	uvsE	ywjC	comS
clsC	srfAC	sboA	sboX
albA	albB	albC	albD
albE	albF	albG	srfAD
rapF	phrF	pbpG	mmr
psrF	bacG	bacF	bacE
bacD	bacC	bacB	bacA
ywfA	csfB	bslB	spsL
spsK	spsJ	spsI	spsG
spsF	spsE	sfpAc	spsD
spsC	spsB	spsA	gerQ
sfpAn	nfrAA	rodA	ywcE
ywzA	slrC	slrA	vbfB
vbfA	ywbO	efeB	glxA
ywbB	ywbA	epr	gspA
ywaF	bsdA	relQ	dltA
dltB	dltC	ubiX	dltD
dltE	yxzF	aag	bsdC
katX	yxlH	yxlG	yxlF
yxlE	yxlD	yxlC	sigY
xpaC	bsdD	nnrA	yxzE
yclD	aldY	galE	yxjJ
yxjI	yxjF	scoB	scoA
yxjC	yxiS	katE	citH
yczF	gerKA	wapI	wapA
rtbE	rtbD	gerKC	gerKB
yxeI	cotNE	yaaN	yxeD
tpeM	tpeL	tpeK	tpeJ
csbC	htpG	yxbG	rapC
yxaM	phrC	qdoI	qdoR
yxnA	yxaB	yczM	ahpC
ahpF	yczN	yycQ	yycP
yycO	yycN	htrC	yycE
yycD	yyzB	cotF	hypR
yybP	ictI	yybF	yyaR
tetB	tetL	yyaL	ccpB
exoA	yyaD	sprC	parB
parA	jag	oxaAA	gabD
glcU	gdh	pxpB	pxpC
pxpR	lipC	ydaD	lyxE
ydaF	ydaG	amj	epsJ
ricT	epsK	ydaL	ydaM
ydaN	poxB	ydaS	ydaT
gsiB	ydbD	ddlA	murF
cshA	ydbS	ydbT	ydcA
ydcC	ndoAI	ndoA	rsbV
rsbW	sigB	rsbX	cmpA
lrpA	lrpB	sufLC	cspC
ydeC	prtG	ydeR	aseR
arsF	veg	ydfJ	sspF
ydfN	ydfO	ydfP	ydzH
ydzR	ydfR	ydfS	cotP
ydgA	ydgB	vmlR	ydgK
spoL	ydhE	ydhF	phoB
ydhK	ydhUc	spoVG	tsaE
groES	groEL	ctc	pth
fin	pspA	ydjO	ydjP
yeaA	cotA	spoVT	yebC
remB	yezF	yerD	opuE
spcP	srfP	spcQ	yezG
yeeF	rapH	phrH	cotK
divIC	cotJA	cotJB	cotJC
yesJ	yesK	yabR	lplD
yetF	flvL	flvM	cypD
ltaSA	spmH	spmG	yfnF
yfnE	yfnD	yfnC	yfmS
copP	copO	yabS	yfmI
prkT	yfmA	yflT	tilS
yflN	nosA	yflJ	yflH
hprT	yflD	yflB	yflA
yfkT	yfkS	yfkR	yfkQ
ftsH	hypO	sufLB	yfkL
yfkJ	yfkI	rbn	coaX
yfkF	chaA	yfkD	mscC
pdaA	hslO	sspH	catD
catE

SW 4.1 Exponential and early post-exponential lifestyles

yhbE	yhbF	hemAT	comK
addB	addA	sbcD	sbcC
farP	med	comZ	oppA
oppB	oppC	oppD	oppF
mecA	coiA	kinD	motB
motA	mcpC	cheV	kre
rok	ampS	kinC	speA
ricF	fbnA	remA	ylqH
dprA	flgB	flgC	fliE
fliF	fliG	fliH	fliI
fliJ	fliK	flgD	flgE
swrD	fliL	fliM	fliY
cheY	fliZ	fliP	fliQ
fliR	flhB	flhA	flhF
flhG	cheB	cheA	cheW
cheC	cheD	sigD	swrB
pnpA	efpI	recA	rny
pdeB	ricA	yoaH	rapK
phrK	cheR	dgrA	oxaAB
spo0A	efp	sinI	sinR
tasA	sipW	tapA	comGG
comGF	comGE	comGD	comGC
comGB	comGA	comEC	comEB
comEA	comER	comN	ysxA
maf	comC	lonA	speD
motS	motP	ycdA	luxS
floT	bslA	tlpB	mcpA
tlpA	mcpB	mstX	kbfO
comA	comP	comX	comQ
degQ	pdeH	bdbC	bdbD
yvaQ	epsO	epsN	epsM
epsL	epsK	epsJ	epsI
epsH	epsG	epsF	epsE
epsD	epsC	epsB	epsA
slrR	yvcJ	yvcA	yvzB
swrAAc	swrAAn	yvzG	fliT
fliS	fliD	yvyC	hag
csrA	fliW	flgL	flgK
flgN	flgM	yvyF	comFC
comFB	comFA	degU	lytC
ptpZ	ptkA	tkmA	ssbB
rapD	flhP	flhO	nin
nucA	tlpC	srfAA	rho
srfAB	comS	srfAC	srfAD
rapF	phrF	sfpAc	sfpAn
slrC	slrA	epr	galE
rapC	phrC	yxaB	veg
remB	yfmS	ftsH

SW 4.1.1 Motility and chemotaxis

yhbE	yhbF	hemAT	motB
motA	mcpC	cheV	ylqH
flgB	flgC	fliE	fliF
fliG	fliH	fliI	fliJ
fliK	flgD	flgE	fliL
fliM	fliY	cheY	fliZ
fliP	fliQ	fliR	flhB
flhA	flhF	flhG	cheB
cheA	cheW	cheC	cheD
sigD	swrB	yoaH	cheR
dgrA	lonA	motS	motP
ycdA	luxS	tlpB	mcpA
tlpA	mcpB	pdeH	yvaQ
epsE	yvzB	swrAAc	swrAAn
yvzG	fliT	fliS	fliD
yvyC	hag	csrA	fliW
flgL	flgK	flgN	flgM
yvyF	lytC	flhP	flhO
tlpC	rho	epr	yfmS

SW 4.1.1.1 Signal transduction in motility and chemotaxis

hemAT	mcpC	cheV	fliY
cheY	cheB	cheA	cheW
cheC	cheD	sigD	swrB
yoaH	cheR	dgrA	lonA
luxS	tlpB	mcpA	tlpA
mcpB	pdeH	yvaQ	epsE
swrAAc	swrAAn	yvzG	csrA
flgM	tlpC	rho	epr
yfmS

SW 4.1.1.1.1 Soluble signalling proteins

cheY	cheB	cheA	cheC
cheD	cheR

SW 4.1.1.1.2 Coupling proteins

cheV

cheW

SW 4.1.1.1.3 Soluble chemoreceptors

hemAT

yfmS

SW 4.1.1.1.4 Membrane-bound chemoreceptors

mcpC	yoaH	tlpB	mcpA
tlpA	mcpB	yvaQ	tlpC

SW 4.1.1.1.5 Additional chemotaxis signal transduction and regulatory proteins

fliY	sigD	swrB	dgrA
lonA	luxS	pdeH	epsE
swrAAc	swrAAn	yvzG	csrA
flgM	rho	epr

SW 4.1.1.2 Flagellar proteins

yhbE	yhbF	motB	motA
flgB	flgC	fliE	fliF
fliG	fliH	fliI	fliJ
fliK	flgD	flgE	fliL
fliM	fliY	fliZ	fliP
fliQ	fliR	flhB	flhA
flhF	motS	motP	fliT
fliS	fliD	hag	fliW
flgL	flgK	flgN	flhP
flhO

SW 4.1.1.3 Flagellar proteins/ based on similarity

SW 4.1.1.4 Motility and chemotaxis/ other

flhG

ycdA

lytC

SW 4.1.2 Biofilm formation

hemAT	farP	kinD	motA
cheV	ampS	kinC	speA
ricF	fbnA	remA	fliF
flgE	cheY	cheA	cheD
sigD	rny	pdeB	ricA
spo0A	sinI	sinR	tasA
sipW	tapA	speD	luxS
floT	bslA	mstX	kbfO
degQ	epsO	epsN	epsM
epsL	epsK	epsJ	epsI
epsH	epsG	epsF	epsE
epsD	epsC	epsB	epsA
slrR	yvcA	swrAAc	swrAAn
hag	degU	ptpZ	ptkA
tkmA	sfpAc	sfpAn	slrC
slrA	galE	yxaB	veg
remB	ftsH

SW 4.1.2.1 Matrix polysaccharide synthesis

epsO	epsN	epsM	epsL
epsK	epsJ	epsI	epsH
epsG	epsF	epsE	epsD
epsC	epsB	epsA	galE

SW 4.1.2.2 Amyloid protein synthesis, secretion and assembly

tasA

sipW

tapA

SW 4.1.2.3 Repellent surface layer

bslA

SW 4.1.2.4 Regulation

kinD	kinC	pdeB	spo0A
sinI	sinR	mstX	kbfO
degQ	slrR	degU	ptpZ
ptkA	tkmA	slrA	veg
ftsH

SW 4.1.2.5 Other proteins required for biofilm formation

farP	ampS	speA	ricF
fbnA	remA	rny	ricA
speD	luxS	floT	yvcA
swrAAc	swrAAn	sfpAc	sfpAn
slrC	yxaB	remB

SW 4.1.2.6 Other proteins required for efficient pellicle biofilm formation

hemAT	motA	cheV	fliF
flgE	cheY	cheA	cheD
sigD	hag

SW 4.1.3 Genetic competence

comK	addB	addA	sbcD
sbcC	med	comZ	oppA
oppB	oppC	oppD	oppF
mecA	coiA	motB	kre
rok	dprA	pnpA	recA
rapK	phrK	oxaAB	comGG
comGF	comGE	comGD	comGC
comGB	comGA	comEC	comEB
comEA	comER	comN	ysxA
maf	comC	comA	comP
comX	comQ	bdbC	bdbD
yvcJ	hag	comFC	comFB
comFA	ssbB	rapD	nin
nucA	comS	rapF	phrF
rapC	phrC

SW 4.1.4 Swarming

swrD	cheY	flhG	cheA
sigD	efpI	efp	sinR
slrR	swrAAc	hag	srfAA
srfAB	srfAC	srfAD	slrA

SW 4.2 Sporulation

yfhD	sspK	yfhS	fabL
sspE	spo0M	ygzA	ygzC
ygaK	yhbB	prkA	yhbH
yhcM	yhcN	yhcO	yhcQ
yhcT	yhcV	yhdB	yhdC
spoVR	yheF	sspB	spaD
spaC	yhaX	yhaL	sscA
yhzF	yhfA	pbpF	yhfM
yhfN	yhfW	yhxC	mcsA
mcsB	yhjQ	yhjR	gerPF
gerPE	gerPD	clpC	gerPC
gerPB	gerPA	pchI	yisJ
yisN	asnO	farP	disA
yisY	yisZ	yitA	yitB
slpH	slpS	yitE	yitF
yitG	yitQ	yizC	yjzC
yjaU	yjaV	yjzB	yjaZ
yjbA	oppA	oppB	oppC
oppD	oppF	yjbE	pepF
yizD	cotO	cotZ	cotY
cotX	cotW	cotV	yjcA
yjzK	yjcZ	spoVIF	yjdH
cotT	cotT	yjfA	yjmC
yjmD	uxuA	uxuB	exuT
exuR	uxaB	uxaA	yjnA
rapA	phrA	xpdC	spoIISB
spoIISA	ykzH	ykjA	ykzD
ykoN	ykoP	ykoQ	ykoS
ykoT	ligD	ligV	ykoY
sspD	ykzP	ykzE	kinE
spo0E	kinD	ykvI	ykvP
ykvQ	ykvU	stoA	splA
splB	ykwB	kinA	ltdD
ykuS	sppO	yaaC	ykpC
kinC	ykzV	ylaJ	ylaK
glsB	ctaA	ylbB	ylbC
ylbD	ylbE	ricF	spoVV
gerR	spoVD	spoVE	murG
murB	divIB	ylxW	ylxX
sbp	spoIIGA	sigG	ylmC
ylyA	tcaB	prkC	spoVM
ftsY	ylqB	ymxH	spoVFA
spoVFB	asd	dapG	dapA
tepA	tepJ	spoIIIE	bcbE
ymfJ	rodZ	spoVS	ricA
cotE	ybaK	cwlD	ymaG
gerD	ymaF	kbaA	cwlC
spoVK	pdaB	alrB	yncE
cotU	cotC	yndA	ynzB
yndD	yndE	yndF	pghL
yndM	spo0D	cotM	sspP
sspO	ynzL	sspN	sspT
ynfE	nrnB	ldeE	ldeF
ldeG	lgeHB	ldeHA	ldeI
ldeJ	ynzE	yngK	yngL
yozQ	yoaI	yoaM	oxdD
yoaQ	yozT	yozF	yoaR
yoaU	yoaW	yobN	yobW
yocL	yoyB	yozN	yocN
ybbC	sqhC	sodF	cdaS
gerT	yojB	yodH	yodI
yoyE	yodL	yozD	yoyF
yodN	yozE	yokU	kamA
kamB	yodQ	yodR	yodS
yodT	yoyG	yoyG	cgeE
cgeD	cgeC	cgeA	cgeB
spsMn	sprB	sspC	spsMc
ypzA	ypeQ	ypeP	sspL
ypzF	bpsB	bpsA	yptA
ypzG	cotD	ypqA	yppG
yppD	sspM	yppC	ypjB
spoIVA	ypzH	yphB	yphA
ypzI	ypfB	sleC	sleB
spmB	spmA	dacB	ypzC
ypzD	lysA	spoVAF	spoVAEA
spoVAEB	spoVAD	spoVAC	spoVAB
spoVAA	sigF	spoIIAB	spoIIAA
csgA	dacF	spoIIM	ybxH
mciZ	yqjC	yqjB	mmgF
mmgE	mmgD	mmgC	mmgB
mmgA	spo0A	spoIVB	ybeF
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
yqhV	yqhR	yqhQ	yqhP
yqhO	yqhH	yqhG	yqzG
spoIIT	sleL	yqgO	yqgE
yqfZ	ispG	yqfX	yqfT
yqfQ	yqfD	yqfC	ybfJ
yqxA	spoIIP	gpr	comER
sda	cwlH	yqeC	sigKn
spoIVCA	yqcK	yqcI	rapE
phrE	yqaO	yqaN	yqzO
sigKc	yrzN	yrkC	cypA
yraG	yraF	adhB	yraE
yraD	yrzA	yrrS	pbpI
yrrI	glnQ	glnH	glnM
glnP	yrzQ	yrzR	yrrD
yrzK	spoVB	yrbG	yrzE
bofC	csbX	alaP	sgpA
safA	obgE	spo0B	spoIVFB
spoIVFA	spoIIB	cotN	spoVID
lonB	cotQ	gerM	gerE
cwlJ	sspI	ytxC	spcF
phoR	phoP	ytwI	ytvI
ytrH	ytrI	gerW	ytfI
sspA	refZ	ytzH	yteV
rmgT	ytvB	ytzC	ytlA
ytlC	ytlD	rppG	ytkC
ythA	ythB	ytzL	yteA
ytdA	ytcA	ytcB	ytcC
cotOO	cotS	cotSA	cotI
glgP	glgA	glgD	glgC
glgB	floT	bslA	cdoA
tgl	yugT	yugS	yugP
yuzI	mstX	kbfO	yuzA
yugF	kinB	kapB	kapD
bofA	yufS	cotIC	yueG
yuzE	yuzF	spsC	yumB
cotNH	yutG	yutC	lytH
fisB	yunC	sspG	yurS
yurZ	yuzL	putM	yuzM
yusN	cotNW	gerAA	gerAB
gerAC	ycgF	ycgG	ycgH
ycgI	sspJ	bdbC	bdbD
azoRB	yvaC	yvaM	rghRA
ycgL	aspP	yvdQ	cotNP
cotR	lgt	yvnB	ctpB
ftsX	ftsE	tuaH	tuaG
tuaF	gerBA	gerBB	gerBC
ywrK	ywrJ	cotB	cotH
NA	chrA	yckC	nfi
rttO	rttN	ywqI	ywqH
yckD	mbl	spoIIID	usd
ywoD	ywoC	ywnJ	spoIIQ
ywnG	rapB	spoIID	ywmB
ywmA	spoIIR	ywkF	spo0F
clsB	uvsE	pbpG	psrF
csfB	bslB	spsL	spsK
spsJ	spsI	spsG	spsF
spsE	spsD	spsC	spsB
spsA	gerQ	ywcE	vbfB
vbfA	ywbB	ywbA	ywaF
katX	yxjF	scoB	scoA
yxjC	citH	yczF	gerKA
gerKC	gerKB	cotNE	yxeD
yycQ	yycP	yycO	yycN
htrC	yycE	yyzB	cotF
yybP	ictI	yyaL	ccpB
exoA	yyaD	sprC	parB
parA	jag	oxaAA	glcU
gdh	pxpB	pxpC	pxpR
lipC	ricT	ydcA	ydcC
cmpA	lrpA	lrpB	prtG
sspF	ydzH	ydzR	ydfR
ydfS	cotP	ydgA	ydgB
spoL	ydhF	phoB	spoVG
fin	ydjP	yeaA	cotA
spoVT	yezF	spcP	spcQ
rapH	phrH	cotK	divIC
cotJA	cotJB	cotJC	yesJ
yesK	yabR	lplD	yetF
cypD	spmH	spmG	yfnF
yfnE	yfnD	yabS	prkT
yfmA	yflN	yflJ	yfkT
yfkS	yfkR	yfkQ	chaA
pdaA	sspH

SW 4.2.1 Sporulation proteins

yfhD	sspK	yfhS	fabL
sspE	ygzA	ygzC	ygaK
yhbB	prkA	yhbH	yhcM
yhcO	yhcQ	yhcT	yhcV
yhdB	yhdC	spoVR	yheF
sspB	spaD	spaC	yhaX
yhaL	sscA	yhzF	yhfA
pbpF	yhfM	yhfN	yhfW
yhxC	mcsA	mcsB	yhjQ
yhjR	clpC	yisJ	yisN
asnO	yisY	yisZ	yitA
yitB	slpH	slpS	yitE
yitF	yitG	yitQ	yizC
yjzC	yjaU	yjaV	yjzB
yjaZ	yjbA	yjbE	yizD
cotO	cotZ	cotY	cotX
cotW	cotV	yjcA	yjzK
yjcZ	spoVIF	yjdH	cotT
cotT	yjfA	yjmC	yjmD
uxuA	uxuB	exuT	exuR
uxaB	uxaA	yjnA	xpdC
spoIISA	ykzH	ykjA	ykzD
ykoN	ykoP	ykoQ	ykoS
ykoT	ligD	ligV	ykoY
sspD	ykzP	ykzE	ykvI
ykvP	ykvQ	stoA	splA
splB	ykwB	ltdD	ykuS
sppO	yaaC	ykpC	ykzV
ylaK	glsB	ctaA	ylbB
ylbC	ylbD	ylbE	spoVV
gerR	spoVD	spoVE	murG
murB	divIB	ylxW	ylxX
sbp	sigG	ylmC	ylyA
tcaB	spoVM	ftsY	ymxH
spoVFA	spoVFB	asd	dapG
dapA	bcbE	ymfJ	cotE
ybaK	cwlD	ymaG	ymaF
cwlC	spoVK	pdaB	alrB
yncE	cotU	cotC	yndA
pghL	yndM	cotM	sspP
sspO	ynzL	sspN	sspT
ynfE	nrnB	ldeE	ldeF
ldeG	lgeHB	ldeHA	ldeI
ldeJ	ynzE	yngK	yngL
yozQ	yoaI	yoaM	oxdD
yoaQ	yozT	yozF	yoaR
yoaU	yoaW	yobN	yobW
yocL	yoyB	yozN	yocN
ybbC	sqhC	sodF	cdaS
gerT	yojB	yodH	yodI
yoyE	yodL	yozD	yoyF
yodN	yozE	yokU	kamA
kamB	yodQ	yodR	yodS
yodT	yoyG	yoyG	cgeE
cgeD	cgeC	cgeA	cgeB
spsMn	sprB	sspC	spsMc
ypzA	ypeQ	ypeP	sspL
ypzF	bpsB	bpsA	yptA
ypzG	cotD	ypqA	yppG
yppD	sspM	yppC	ypjB
spoIVA	ypzH	yphB	yphA
ypzI	ypfB	spmB	spmA
dacB	ypzC	ypzD	lysA
spoVAF	spoVAC	spoVAB	spoVAA
sigF	spoIIAB	spoIIAA	dacF
spoIIM	ybxH	mciZ	yqjC
yqjB	mmgF	mmgE	mmgD
mmgC	mmgB	mmgA	spoIVB
ybeF	spoIIIAH	spoIIIAG	spoIIIAF
spoIIIAE	spoIIIAD	spoIIIAC	spoIIIAB
spoIIIAA	yqhV	yqhR	yqhQ
yqhP	yqhO	yqhH	yqhG
yqzG	sleL	yqgO	yqgE
yqfZ	ispG	yqfX	yqfT
yqfQ	yqfD	yqfC	ybfJ
yqxA	spoIIP	comER	cwlH
yqeC	sigKn	spoIVCA	yqcK
yqcI	yqaO	yqaN	yqzO
sigKc	yrzN	yrkC	cypA
yraG	yraF	adhB	yraE
yraD	yrzA	yrrS	pbpI
yrrI	glnQ	glnH	glnM
glnP	yrzQ	yrzR	yrrD
yrzK	spoVB	yrbG	yrzE
bofC	csbX	alaP	sgpA
safA	spoIVFB	spoIVFA	cotN
spoVID	lonB	cotQ	cwlJ
sspI	ytxC	phoR	phoP
ytwI	ytvI	ytrH	ytrI
ytfI	sspA	refZ	ytzH
yteV	rmgT	ytvB	ytzC
ytlA	ytlC	ytlD	rppG
ytkC	ythA	ythB	ytzL
yteA	ytdA	ytcA	ytcB
ytcC	cotOO	cotS	cotSA
cotI	glgP	glgA	glgD
glgC	glgB	cdoA	tgl
yugT	yugS	yugP	yuzI
mstX	kbfO	yuzA	yugF
bofA	yufS	cotIC	yueG
yuzE	yuzF	spsC	yumB
cotNH	yutG	yutC	lytH
fisB	yunC	sspG	yurS
yurZ	yuzL	putM	yuzM
yusN	cotNW	ycgF	ycgG
ycgH	ycgI	sspJ	bdbC
bdbD	azoRB	yvaC	yvaM
ycgL	aspP	yvdQ	cotNP
cotR	yvnB	ctpB	tuaH
tuaG	tuaF	ywrK	ywrJ
cotB	cotH	NA	yckC
nfi	rttO	rttN	ywqI
ywqH	yckD	mbl	spoIIID
usd	ywoD	ywoC	ywnJ
spoIIQ	ywnG	spoIID	ywmA
spoIIR	ywkF	clsB	uvsE
pbpG	psrF	csfB	spsL
spsK	spsJ	spsI	spsG
spsF	spsE	spsD	spsC
spsB	spsA	gerQ	vbfB
vbfA	ywbB	ywbA	ywaF
katX	yxjF	scoB	scoA
yxjC	citH	cotNE	yxeD
yycQ	yycP	yycO	yycN
htrC	yycE	yyzB	cotF
yybP	ictI	yyaL	ccpB
exoA	yyaD	sprC	glcU
lipC	ydcA	ydcC	cmpA
prtG	sspF	ydzH	ydzR
ydfR	ydfS	cotP	ydgA
ydgB	spoL	ydhF	phoB
fin	ydjP	yeaA	cotA
spoVT	yezF	spcP	spcQ
cotK	divIC	cotJA	cotJB
cotJC	yesJ	yesK	yabR
lplD	yetF	cypD	spmH
spmG	yfnF	yfnE	yfnD
yabS	prkT	yfmA	yflN
yflJ	chaA	pdaA	sspH

SW 4.2.1.1 Spore coat proteins

ygaK	yhbB	spaD	spaC
yhaX	yhjR	yisJ	yisY
yjzB	cotO	cotZ	cotY
cotX	cotW	cotV	yjdH
cotT	cotT	xpdC	ykvP
ltdD	sppO	ylbD	gerR
spoVM	cotE	ymaG	alrB
cotU	cotC	cotM	oxdD
yobN	gerT	yodI	cgeE
cgeD	cgeC	cgeA	cgeB
ypeP	cotD	yppG	spoIVA
sleL	yqfT	safA	cotN
spoVID	cotQ	cwlJ	cotOO
cotS	cotSA	cotI	tgl
cotIC	cotNH	cotNP	cotR
cotB	cotH	NA	ywqH
spsB	gerQ	cotNE	cotF
ictI	lipC	cmpA	prtG
cotP	spoL	cotA	cotK
cotJA	cotJB	cotJC

SW 4.2.1.1.1 Class I

yhaX	spoVM	spoIVA	sleL
spoVID	cotIC

SW 4.2.1.1.2 Class II

spaD	yhjR	cotO	sppO
cotE	alrB	cotM

SW 4.2.1.1.3 Class III

yisY	cotZ	cotN	cwlJ
tgl	cotNH

SW 4.2.1.1.4 Class IV

yjzB	cotW	xpdC	ylbD
ymaG	oxdD	yppG	cotOO
cotS	cotNP	cotB	NA
cotNE	lipC	cotP	cotA
cotK

SW 4.2.1.1.7 Class VI

cotU

cotD

SW 4.2.1.1.8 Not yet assigned

ygaK	yhbB	spaC	yisJ
cotY	cotX	cotV	yjdH
ykvP	ltdD	gerR	cotC
yobN	gerT	yodI	cgeE
cgeD	cgeC	cgeA	cgeB
ypeP	yqfT	safA	cotSA
cotI	cotR	cotH	ywqH
spsB	gerQ	cotF	cmpA
prtG	spoL	cotJA	cotJB
cotJC

SW 4.2.1.2 Spore coat protein/ based on similarity

yraG	yraF	yraE	yraD
yvdQ

SW 4.2.1.3 Small acid-soluble spore proteins

sspK	sspE	sspB	sspD
sspP	sspO	sspN	sspC
sspL	sspM	sspI	sspA
sspG	sspJ	sspF	sspH

SW 4.2.1.4 Sporulation proteins/ other

yfhD	fabL	prkA	yhbH
yhcM	yhcO	yhcQ	yhcV
spoVR	yhaL	sscA	pbpF
yhfM	yhfW	yhxC	mcsA
mcsB	clpC	asnO	yisZ
yitA	yitB	slpH	slpS
yitF	yitG	yjaV	yjbA
yjcA	spoVIF	yjfA	yjmC
yjmD	uxuA	uxuB	exuT
exuR	uxaB	uxaA	spoIISA
ligD	ligV	ykvI	ykvQ
stoA	splA	splB	ctaA
ylbB	ylbC	ylbE	spoVV
spoVD	spoVE	murG	murB
divIB	ylxW	ylxX	sbp
sigG	ylmC	ylyA	tcaB
ftsY	ymxH	spoVFA	spoVFB
asd	dapG	dapA	ybaK
cwlD	cwlC	spoVK	pdaB
yndA	pghL	sspT	ldeE
ldeF	ldeG	lgeHB	ldeHA
ldeI	ldeJ	yozQ	yoaR
yoaW	yobW	yocL	sqhC
sodF	cdaS	yodH	yokU
kamA	kamB	yodQ	yodR
yodS	yodT	sprB	ypzA
ypzF	ypqA	ypjB	yphB
yphA	ypfB	spmB	spmA
dacB	lysA	spoVAF	spoVAC
spoVAB	spoVAA	sigF	spoIIAB
spoIIAA	dacF	spoIIM	ybxH
yqjC	mmgF	mmgE	mmgD
mmgC	mmgB	mmgA	spoIVB
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
yqhQ	yqhP	yqhH	yqhG
yqzG	yqfZ	ispG	yqfX
yqfQ	yqfD	yqfC	yqxA
spoIIP	cwlH	sigKn	spoIVCA
yqcK	sigKc	yrkC	adhB
yrrS	pbpI	glnQ	glnH
glnM	glnP	yrrD	spoVB
bofC	csbX	sgpA	spoIVFB
spoIVFA	lonB	ytxC	phoR
phoP	ytvI	ytrH	ytrI
ytfI	refZ	yteV	ytlA
ytlC	ytlD	rppG	yteA
ytcB	ytcC	glgP	glgA
glgD	glgC	glgB	yuzA
bofA	spsC	lytH	fisB
yurS	yusN	ycgF	ycgG
bdbC	bdbD	azoRB	aspP
ctpB	tuaH	tuaG	tuaF
ywrJ	yckC	yckD	mbl
spoIIID	usd	ywnJ	spoIIQ
spoIID	spoIIR	clsB	uvsE
pbpG	psrF	csfB	spsL
spsK	spsJ	spsI	spsG
spsF	spsE	spsD	spsC
spsA	vbfB	vbfA	katX
yxjF	scoB	scoA	yxjC
yxeD	htrC	ccpB	exoA
yyaD	sprC	glcU	ydcA
ydcC	ydfR	ydfS	ydgA
ydgB	ydhF	phoB	fin
ydjP	yeaA	spoVT	spcP
spcQ	divIC	yesJ	yesK
yabR	spmH	spmG	yfnF
yfnE	yfnD	prkT	chaA
pdaA

SW 4.2.1.5 Newly identified sporulation proteins (based on transcription profiling)

yfhS	ygzA	ygzC	yhcT
yhdB	yhdC	yheF	yhzF
yhfA	yhfN	yhjQ	yisN
yitE	yitQ	yizC	yjzC
yjaU	yjaZ	yjbE	yizD
yjzK	yjcZ	yjnA	ykzH
ykjA	ykzD	ykoN	ykoP
ykoQ	ykoS	ykoT	ykoY
ykzP	ykzE	ykwB	ykuS
yaaC	ykpC	ykzV	ylaK
glsB	bcbE	ymfJ	ymaF
yncE	yndM	ynzL	ynfE
nrnB	ynzE	yngK	yngL
yoaI	yoaM	yoaQ	yozT
yozF	yoaU	yoyB	yozN
yocN	ybbC	yojB	yoyE
yodL	yozD	yoyF	yodN
yozE	yoyG	yoyG	spsMn
spsMc	ypeQ	bpsB	bpsA
yptA	ypzG	yppD	yppC
ypzH	ypzI	ypzC	ypzD
mciZ	yqjB	ybeF	yqhV
yqhR	yqhO	yqgO	yqgE
ybfJ	comER	yqeC	yqcI
yqaO	yqaN	yqzO	yrzN
cypA	yrzA	yrrI	yrzQ
yrzR	yrzK	yrbG	yrzE
alaP	ytwI	ytzH	rmgT
ytvB	ytzC	ytkC	ythA
ythB	ytzL	ytdA	ytcA
cdoA	yugT	yugS	yugP
yuzI	mstX	kbfO	yugF
yufS	yueG	yuzE	yuzF
yumB	yutG	yutC	yunC
yurZ	yuzL	putM	yuzM
cotNW	ycgH	ycgI	yvaC
yvaM	ycgL	yvnB	ywrK
nfi	rttO	rttN	ywqI
ywoD	ywoC	ywnG	ywmA
ywkF	ywbB	ywbA	ywaF
citH	yycQ	yycP	yycO
yycN	yycE	yyzB	yybP
yyaL	ydzH	ydzR	yezF
lplD	yetF	cypD	yabS
yfmA	yflN	yflJ

SW 4.2.2 phosphorelay

pchI	farP	oppA	oppB
oppC	oppD	oppF	pepF
rapA	phrA	kinE	spo0E
kinD	kinA	kinC	ricF
ylqB	ricA	kbaA	spo0D
spo0A	sda	rapE	phrE
obgE	spo0B	bslA	kinB
kapB	kapD	rghRA	ftsX
ftsE	rapB	spo0F	bslB
pxpB	pxpC	pxpR	ricT
lrpA	lrpB	rapH	phrH

SW 4.2.2.1 The kinases

kinE	kinD	kinA	kinC
kinB

SW 4.2.2.2 Proteins controlling the activity of the kinases

ylqB	kbaA	sda	bslA
kapB	bslB	pxpB	pxpC

SW 4.2.2.3 The phosphotransferases

spo0B

spo0F

SW 4.2.2.4 The ultimate target

spo0A

SW 4.2.2.5 Phosphatases controlling the phosphorelay

pchI	rapA	spo0E	spo0D
rapE	rapB	rapH

SW 4.2.2.6 Other protein controlling the activity of the phosphorelay

phrA	ricF	ricA	phrE
ricT	phrH

SW 4.2.3 Sporulation/ other

spo0M	disA	spoIISB	spoIIGA
spoIIIE	rodZ	spoVS	spoIIT
spoIIB	spcF	floT	chrA
ywmB	ywcE	parB	parA
jag	oxaAA	spoVG

SW 4.2.4 Germination

yhcN	gerPF	gerPE	gerPD
gerPC	gerPB	gerPA	ykvU
ylaJ	prkC	tepA	tepJ
gerD	gerT	sleC	sleB
spoVAEA	spoVAEB	spoVAD	csgA
gpr	gerM	gerE	cwlJ
gerW	gerAA	gerAB	gerAC
lgt	gerBA	gerBB	gerBC
gerQ	ywcE	yczF	gerKA
gerKC	gerKB	gdh	lipC

SW 4.2.4.1 Germinant receptors

gerAA	gerAB	gerAC	gerBA
gerBB	gerBC	yczF	gerKA
gerKC	gerKB

SW 4.2.4.2 Additional germination proteins

yhcN	gerPF	gerPE	gerPD
gerPC	gerPB	gerPA	ykvU
ylaJ	prkC	tepA	tepJ
gerD	gerT	sleC	sleB
spoVAEA	spoVAEB	spoVAD	csgA
gpr	gerM	gerE	cwlJ
gerW	lgt	gerQ	ywcE
gdh	lipC

SW 4.2.5 Germination/ based on similarity

ynzB	yndD	yndE	yndF
yfkT	yfkS	yfkR	yfkQ

SW 4.3 Coping with stress

padR	yfiS	bstA	yfiU
yfhD	yfhE	yfhF	yfhI
yfhK	spdL	ephM	csbB
yfhO	bcp	perR	spo0M
katA	cspB	yhcM	nsrR
ygxB	yhdF	asiMB	asiMA
sigM	akrN	plsC	cueR
crcBA	crcBB	mscY	nhaX
bmrC	bmrD	yhaJ	ctsR
yhxD	mcsA	ntdC	ntdB
ntdA	ntdR	yhjO	mcsB
clpC	radA	disA	yitG
yacL	ispD	yitT	ispF
yitZ	fabF	yjbB	yjbC
spxA	spxH	yjbI	yjzE
yjgB	yjgC	yjgD	ppuG
yjoB	xpdC	spoIISC	spoIISB
spoIISA	mhqA	htrA	ldcA
pgl	ddaH	hmpA	proA
ohrA	ohrR	ohrB	guaN
sigI	rsgI	ktrD	mhqR
clpE	papB	ykuC	mscT
ykuV	skiW	skiX	skiY
skiZ	mreBH	abhA	ktrC
ykzI	bipA	bshC	murB
divIB	ylxW	ylxX	sbp
flhG	ylxP	pbpX	pksB
pksC	pksD	pksE	acpK
pksF	pksG	pksH	pksI
pksJ	pksL	pksM	pksN
pksR	pksS	ymzB	ymaD
ebrB	ebrA	fosB	yngC
ppsE	ppsD	ppsC	ppsB
ppsA	proJ	proH	yoxC
yoxB	yoaA	yoaF	yoaG
oxdD	penP	yppS	S718_716_asrE
S717_BsrG	yobJ	rttM	rttL
czrA	yocB	yocD	desE
desK	desR	azoJ	yocK
yocM	yozO	sqhC	sodF
sodC	yojK	mdtK	bshBB
arxR	noxC	yodD	yodE
sigW	rsiW	yoyJ	spbT
sunS	sunT	sunA	sunI
bsrG_S809_BsrG	S810_asrG	yokJ	yokI
yokG	aacD	msrB	msrA
dinF	silP	brxA	bsaA
metAA	ugtP	cspD	bpsB
bpsA	skfA	skfB	recU
ponA	skfC	skfE	bshA
bshBA	skfF	ypdA	ypbG
rsiX	sigX	ypuD	ypuA
spoVAC	ybxI	yqjV	cypC
yqjM	yqjL	ybyB	brxB
bmrU	bmr	bmrR	papA
yqhQ	yqhP	yqxL	sleL
yqhB	rsbRD	mgsR	sodA
yqfB	floA	nfeDA	mtaB
rsmE	prmA	dnaJ	dnaK
grpE	hrcA	pssA	yaaI
ybfM	psd	arsC	arsB
yqcK	arsR	rttG	rttF
ybfO	ybfP	txpA	ratA_ratA
ybfQ	S977	ybgB	yrdP
czcD	aadK	adhR	adhA
sufL	sigV	rsiV	oatA
yrhK	cypB	bscR	yrhH
secDF	ycbJ	bofC	csbX
minD	minC	mreD	mreC
mreB	ysxA	ysnF	ycbP
trxA	ycbR	ysdB	ytbD
phoR	phoP	lmrB	lmrA
ytkL	tpx	yteJ	sppA
brxJ	ytxH	ytxG	ytpQ
ytnP	ythQ	ythP	opuD
yttB	bceB	bceA	bceS
bceR	ytrF	ytrE	ytrD
ytrC	ytrB	ytrA	tbcS
ytpA	dps	rpmEB	ytaB
ycdF	ycdG	yuaI	floT
nfeDB	gbsB	gbsA	gbsR
ktrA	ktrB	yubD	yceC
yugU	yceD	yuzA	yceE
yceF	yuxJ	yceG	yceH
yukD	yceJ	opuAA	opuAB
opuAC	glxB	yusI	mdtR
mdtP	mdr	mrgA	htrB
cssR	cssS	liaR	liaS
liaF	liaG	liaH	liaI
yvqJ	yvrE	rsoA	sigO
yvrJ	oxdC	rsiO	pgoN
yvgO	nadE	cadA	copA
copZ	csoR	tmrB	iolW
azoRB	yvaE	rnr	estA
catR	opuBD	opuBC	opuBB
opuBA	sdpA	sdpB	spbC
sdpI	sdpR	opuCD	opuCC
opuCB	opuCA	opcR	yvbG
cah	padC	racX	pbpE
clpP	ycgQ	psdB	psdA
psdS	psdR	ycgR	trxB
bmrA	pchE	yvlD	yvlC
yvlB	yvlA	csbA	yvkA
hpf	tagU	gtaB	ywtG
tagT	ywsB	ywrK	ywrE
chrS	chrB	chrA	rttO
rttN	mscL	rapD	ywoG
bcrC	ywnJ	ywnH	mta
csbD	ywmF	hxlB	ywmE
hxlA	hxlR	ywlB	srfAA
srfAB	ywjC	clsC	srfAC
sboA	sboX	albA	albB
albC	albD	albE	albF
albG	srfAD	mmr	bacG
bacF	bacE	bacD	bacC
bacB	bacA	ywfA	sfpAc
sfpAn	nfrAA	rodA	ywzA
ywbO	efeB	glxA	gspA
bsdA	relQ	dltA	dltB
dltC	ubiX	dltD	dltE
yxzF	aag	bsdC	katX
yxlH	yxlG	yxlF	yxlE
yxlD	yxlC	sigY	xpaC
bsdD	nnrA	yxzE	yclD
aldY	yxjJ	yxjI	yxiS
katE	wapI	wapA	rtbE
rtbD	yxeI	yaaN	tpeM
tpeL	tpeK	tpeJ	csbC
htpG	yxbG	yxaM	qdoI
qdoR	yxnA	yxaB	yczM
ahpC	ahpF	yczN	yycD
hypR	yybF	yyaR	tetB
tetL	gabD	ydaD	lyxE
ydaF	ydaG	amj	epsJ
epsK	ydaL	ydaM	ydaN
poxB	ydaS	ydaT	gsiB
ydbD	ddlA	murF	cshA
ydbS	ydbT	ndoAI	ndoA
rsbV	rsbW	sigB	rsbX
sufLC	cspC	ydeC	ydeR
aseR	arsF	ydfJ	ydfN
ydfO	ydfP	vmlR	ydgK
ydhE	ydhK	ydhUc	tsaE
groES	groEL	ctc	pth
pspA	ydjO	ydjP	yeaA
yebC	yerD	opuE	srfP
yezG	yeeF	divIC	flvL
flvM	ltaSA	yfnC	copP
copO	yfmI	yflT	tilS
nosA	yflH	hprT	yflD
yflB	yflA	yfkT	yfkS
ftsH	hypO	sufLB	yfkL
yfkJ	yfkI	rbn	coaX
yfkF	chaA	yfkD	mscC
hslO	catD	catE

SW 4.3.1 General stress proteins (controlled by SigB)

yfhD	yfhE	yfhF	yfhK
spdL	ephM	csbB	yfhO
yhcM	ygxB	yhdF	akrN
plsC	nhaX	ctsR	yhxD
mcsA	mcsB	clpC	radA
disA	yacL	ispD	yitT
ispF	yjbC	spxA	yjzE
yjgB	yjgC	yjgD	pgl
ddaH	ohrB	guaN	mscT
ykzI	ylxP	ymzB	yoxC
yoxB	yoaA	yocB	yocK
ypuD	cypC	yqjL	ybyB
bmrU	bmr	bmrR	yqhQ
yqhP	yqxL	sleL	yqhB
rsbRD	mgsR	sodA	yaaI
sufL	bofC	csbX	ysnF
ycbP	trxA	ysdB	phoR
phoP	ytkL	brxJ	ytxH
ytxG	dps	rpmEB	ytaB
ycdF	ycdG	yceC	yugU
yceD	yuzA	yceE	yceF
yceG	yceH	yvrE	pgoN
yvgO	nadE	iolW	estA
yvbG	clpP	csbA	hpf
gtaB	ywtG	ywsB	csbD
ywmF	ywmE	ywlB	ywjC
clsC	ywzA	gspA	yxzF
aag	katX	nnrA	aldY
yxjJ	yxjI	yxiS	katE
csbC	yxbG	yxnA	yxaB
yycD	gabD	ydaD	lyxE
ydaF	ydaG	epsJ	epsK
ydaL	ydaM	ydaN	poxB
ydaS	ydaT	gsiB	ydbD
rsbV	rsbW	sigB	rsbX
ydeC	ydfO	ydfP	ydhK
ctc	pth	yerD	opuE
yflT	yflH	yflD	yflB
yflA	yfkT	yfkS	sufLB
yfkJ	yfkI	rbn	chaA
yfkD

SW 4.3.10 Resistance against other toxic compounds (nitric oxide, phenolic acids, flavonoids, oxalate)

padR	nsrR	crcBA	crcBB
spxH	yjbI	hmpA	oxdD
padC	bsdA	ubiX	bsdC
bsdD	yclD	qdoI	qdoR
flvL	flvM

SW 4.3.11 Resistance against toxic metals

cueR	czrA	arsC	arsB
yqcK	arsR	yrdP	czcD
cadA	copA	copZ	csoR
chrS	chrB	chrA	aseR
arsF

SW 4.3.12 Resistance against toxic metals/ based on similarity

ycbR	yceC	yceD	yceE
yceF	yusI	ywrK

SW 4.3.13 Resistance against toxins/ antibiotics

spdL	sigM	bmrC	bmrD
skiW	skiX	skiY	skiZ
flhG	ebrB	ebrA	fosB
penP	yppS	sunI	ybxI
bmrU	bmr	bmrR	yqfB
floA	nfeDA	aadK	lmrB
lmrA	ytnP	bceB	bceA
bceS	bceR	ytrA	mdtR
mdtP	mdr	liaR	liaS
liaF	liaG	liaH	liaI
tmrB	cah	psdB	psdA
psdS	psdR	bmrA	mta
mmr	yxeI	tpeM	tpeL
tpeK	tpeJ	yyaR	tetB
tetL	ydbS	ydbT	vmlR
srfP

SW 4.3.14 Resistance against toxins/ antibiotics/ based on similarity

yfiS	yfiU	yfhI	yhjO
yitG	yitZ	yjbB	ppuG
ykuC	yojK	mdtK	aacD
dinF	yqjV	ybfO	ycbJ
ytbD	yttB	yubD	yuxJ
yceJ	yvqJ	yvaE	pchE
yvkA	ywoG	bcrC	ywnH
ywfA	yxlH	yxaM	yybF
ydeR	ydfJ	ydgK	ydhE
yfnC	copP	copO	yfmI
yfkL	yfkF

SW 4.3.15 Biosynthesis of antibacterial compounds

ntdC	ntdB	ntdA	ntdR
pksB	pksC	pksD	pksE
acpK	pksF	pksG	pksH
pksI	pksJ	pksL	pksM
pksN	pksR	pksS	ppsE
ppsD	ppsC	ppsB	ppsA
sunS	sunT	sunA	bpsB
bpsA	srfAA	srfAB	srfAC
sboA	sboX	albA	albB
albC	albD	albE	albF
albG	srfAD	bacG	bacF
bacE	bacD	bacC	bacB
bacA	sfpAc	sfpAn	nosA

SW 4.3.16 Biosynthesis of antibacterial compounds/ based on similarity

yhaJ

yukD

SW 4.3.17 Toxins, antitoxins and immunity against toxins

spoIISC	spoIISB	spoIISA	S718_716_asrE
S717_BsrG	rttM	rttL	yoyJ
spbT	sunA	sunI	bsrG_S809_BsrG
S810_asrG	yokJ	yokI	skfA
skfB	skfC	skfE	skfF
rttG	rttF	txpA	ratA_ratA
S977	sdpA	sdpB	spbC
sdpI	sdpR	rttO	rttN
rtbE	rtbD	ndoAI	ndoA
yezG	yeeF

SW 4.3.17.1 Type 1 TA systems

S718_716_asrE	S717_BsrG	yoyJ	spbT
bsrG_S809_BsrG	S810_asrG	txpA	ratA_ratA
S977

SW 4.3.17.2 Type 2 TA systems

spoIISC	spoIISB	spoIISA	rttM
rttL	yokJ	yokI	rttG
rttF	rttO	rttN	rtbE
rtbD	ndoAI	ndoA	yezG
yeeF

SW 4.3.18 Toxins, antitoxins and immunity against toxins/ based on similarity

ldcA	rttM	rttL	yocD
spbT	yokJ	yokI	yokG
rttG	rttF	ybgB	rttN
wapI	wapA	rtbE	rtbD
yczM	yczN	yezG	yeeF

SW 4.3.2 Cell envelope stress proteins (controlled by SigM, V, W, X, Y)

spdL	ephM	csbB	yfhO
spo0M	asiMB	asiMA	sigM
disA	yacL	ispD	fabF
yjbC	spxA	yjoB	skiW
skiX	skiY	skiZ	abhA
murB	divIB	ylxW	ylxX
sbp	pbpX	fosB	yngC
yoaF	yoaG	yobJ	yozO
sigW	rsiW	metAA	ugtP
recU	ponA	ypbG	rsiX
sigX	ypuD	ypuA	yqjL
yqfB	floA	nfeDA	pssA
ybfM	psd	ybfO	ybfP
ybfQ	ybgB	sigV	rsiV
oatA	yrhK	cypB	bscR
yrhH	secDF	minD	minC
mreD	mreC	mreB	ysxA
ysdB	yteJ	sppA	ythQ
ythP	tbcS	ytpA	yuaI
floT	nfeDB	yceC	yceD
yceE	yceF	yceG	yceH
racX	pbpE	ycgQ	ycgR
yvlD	yvlC	yvlB	yvlA
tagU	tagT	ywrE	rapD
bcrC	ywnJ	rodA	ywbO
efeB	relQ	dltA	dltB
dltC	dltD	dltE	yxlG
yxlF	yxlE	yxlD	yxlC
sigY	xpaC	yxzE	yxjI
yaaN	amj	ddlA	murF
ydbS	ydbT	pspA	ydjO
ydjP	yeaA	yebC	divIC
ltaSA	tilS	hprT	ftsH
coaX	hslO

SW 4.3.3 Acid stress proteins (controlled by YvrI-YvrHa)

rsoA	sigO	yvrJ	oxdC
rsiO

SW 4.3.4 Heat shock proteins

ctsR	mcsA	mcsB	clpC
radA	disA	htrA	sigI
rsgI	clpE	mreBH	mtaB
rsmE	prmA	dnaJ	dnaK
grpE	hrcA	htrB	cssR
cssS	clpP	bcrC	htpG
groES	groEL	ftsH

SW 4.3.5 Cold stress proteins

cspB	bipA	desE	desK
desR	silP	cspD	ytrF
ytrE	ytrD	ytrC	ytrB
ytrA	cshA	cspC	ydjO

SW 4.3.6 Coping with hyper-osmotic stress

proA	ktrD	papB	ktrC
proJ	proH	yocM	papA
opuD	gbsB	gbsA	gbsR
ktrA	ktrB	opuAA	opuAB
opuAC	opuBD	opuBC	opuBB
opuBA	opuCD	opuCC	opuCB
opuCA	opcR	opuE

SW 4.3.7 Coping with hypo-osmotic stress

mscY	mscT	spoVAC	mscL
mscC

SW 4.3.8 Resistance against oxidative and electrophile stress

bstA	yfhE	csbB	perR
katA	akrN	yitT	yjbC
spxA	yjgD	mhqA	ohrA
ohrR	ohrB	guaN	mhqR
ykuV	bshC	ylxP	ymaD
azoJ	sqhC	sodF	sodC
bshBB	arxR	noxC	yodD
yodE	msrB	msrA	brxA
bsaA	bshA	bshBA	ypdA
cypC	yqjM	yqjL	brxB
yqhB	mgsR	sodA	adhR
adhA	sufL	trxA	tpx
ytpQ	dps	yugU	glxB
mrgA	liaR	liaS	liaF
liaG	liaH	liaI	pgoN
azoRB	rnr	catR	trxB
csbA	hpf	hxlB	hxlA
hxlR	clsC	nfrAA	efeB
glxA	aag	katX	aldY
yxjJ	yxiS	katE	csbC
ahpC	ahpF	hypR	ydaG
sufLC	ydfN	ydfO	ydfP
ydhK	tsaE	yerD	yflA
yfkS	hypO	sufLB	yfkJ
yfkI	rbn	catD	catE

SW 4.3.9 Resistance against oxidative and electrophile stress/ based on similarity

SW 4.4 Lifestyles/ miscellaneous

exlX

yplQ

ytjA

SW 5 Prophages and mobile genetic elements

xlyB	yjqA	pghB	xpdC
xkdA	xre	yjzJ	xkdB
xkdC	ykzK	xkdD	xtrA
xpf	xtmA	xtmB	xkdE
xkdF	xkdG	ykzL	xkdH
xkdI	xkdJ	ykzM	xkdK
xkdM	xkdN	xkzB	xkdO
xkdP	xkdQ	xkdR	xkdS
xkdT	xkdU	xkzA	xkdV
xkdW	xkdX	xepA	xhlA
xhlB	xlyA	sprB	yotM
yotL	yotK	yotJ	yotI
yotH	yotG	yotF	yotE
yotD	yotC	yotB	sspC
yosX	yosW	yosV	yojW
yosU	yosT	dutB	yosR
nrdFB	yosQ	nrdEB	nrdEB
nrdIB	yosL	yosK	yosJ
yosI	yosH	yosG	yosF
yosE	yosD	yosC	yosB
yosA	yorZ	yorY	yorX
yorW	yorV	mtbP	yorT
yorS	yorR	yorQ	yorP
yorO	yorN	yorM	dpoL
yorK	yorJ	yorI	yorH
yorG	yorF	yorE	yorD
yorC	yorB	yorA	pghZ
yoqY	yoqX	yoqW	yoqV
yoqU	yoqT	yoqS	yoqR
yoqP	yoqO	yoqN	yoqM
yoqL	yoqK	yoqJ	yoqI
yoqH	yoqG	yoqF	yoqE
yoqD	yoqC	yoqB	yoqA
yopZ	yopY	yopX	yopW
yopV	yopU	yopT	yopS
yopR	yopQ	yopP	yopO
yopN	yopM	aimP	aimR
yopJ	yopI	sieB	yopG
yopF	yopE	yoyH	yoyI
yopD	yopC	yopB	yopA
yonX	yonV	yonU	yoyJ
spbT	yonS	yonR	yonP
yonO	hupN	yonK	yonJ
yonI	yonH	yonG	yonF
yonE	yonD	yonC	yonB
yonA	yomZ	alkA	yomY
yomX	yomW	yomV	yomU
youA	yomT	yomS	yomR
yomQ	adaA	yomP	yomO
yomN	yomM	yozP	yomL
youB	yomK	yomJ	cwlP
adaB	yomH	yomG	yomF
yomE	yomD	blyA	bhlA
bhlB	bdbB	sunS	bdbA
sunT	sunA	sunI	uvrX
yolD	yolC	yolB	yolA
ndhF	yokL	yokK	yokJ
yokI	yokH	yoyK	ybcC
yoyK	yokG	nukF	yokE
aacD	yokC	ybcF	yokB
sprA	ybcH	ybcI	ybzH
ybcL	ybcM	skfA	skfB
skfC	skfE	skfF	skfG
skfH	spoIVCA	arsC	arsB
yqcK	arsR	yqcI	rapE
phrE	yqzI	rttG	rttF
yqxJ	yqxI	cwlA	yqxH
yqxG	yqcE	yqcD	yqcC
yqcB	yqcA	yqbT	yqbS
yqbR	yqbQ	yqbP	yqbO
yqbNc	yqbNn	txpA	yqbM
yqbK	yqzN	yqbJ	yqbI
yqbH	yqbG	yqbF	yqbE
yqbD	yqbC	yqbB	yqbA
yqaT	yqaS	yqaR	yqaQ
yqaP	yqaO	yqaN	yqzO
sknM	yqaL	yqaK	yqaJ
yqaI	sknH	yqaG	yqdA
yqaF	sknR	yqaD	yqaC
yqaB	yueB	ydcL	immA
immR	xis	ydzL	ydcO
helP	conQ	nicK	ydcS
ydcT	yddA	conB	conC
conD	conE	yddF	conG
cwlT	yddI	yddJ	yddK
rapI	phrI	yddM	ydzTc
ydzT	ydzT	ydzT	ydzTn
ydiM	ydzU	ydzV	bsuMA
bsuMB	ydzWc	ydzWmc	ydzWmb
ydzW	ydzW	ydzWma	ydzWn
bsuRA	bsuRB	bsuRC	ydjB
ydjC	yerB	pcrA

SW 5.1 Prophages

xlyB	yjqA	pghB	xpdC
xkdA	xre	yjzJ	xkdB
xkdC	ykzK	xkdD	xtrA
xpf	xtmA	xtmB	xkdE
xkdF	xkdG	ykzL	xkdH
xkdI	xkdJ	ykzM	xkdK
xkdM	xkdN	xkzB	xkdO
xkdP	xkdQ	xkdR	xkdS
xkdT	xkdU	xkzA	xkdV
xkdW	xkdX	xepA	xhlA
xhlB	xlyA	sprB	yotM
yotL	yotK	yotJ	yotI
yotH	yotG	yotF	yotE
yotD	yotC	yotB	sspC
yosX	yosW	yosV	yojW
yosU	yosT	dutB	yosR
nrdFB	yosQ	nrdEB	nrdEB
nrdIB	yosL	yosK	yosJ
yosI	yosH	yosG	yosF
yosE	yosD	yosC	yosB
yosA	yorZ	yorY	yorX
yorW	yorV	mtbP	yorT
yorS	yorR	yorQ	yorP
yorO	yorN	yorM	dpoL
yorK	yorJ	yorI	yorH
yorG	yorF	yorE	yorD
yorC	yorB	yorA	pghZ
yoqY	yoqX	yoqW	yoqV
yoqU	yoqT	yoqS	yoqR
yoqP	yoqO	yoqN	yoqM
yoqL	yoqK	yoqJ	yoqI
yoqH	yoqG	yoqF	yoqE
yoqD	yoqC	yoqB	yoqA
yopZ	yopY	yopX	yopW
yopV	yopU	yopT	yopS
yopR	yopQ	yopP	yopO
yopN	yopM	aimP	aimR
yopJ	yopI	sieB	yopG
yopF	yopE	yoyH	yoyI
yopD	yopC	yopB	yopA
yonX	yonV	yonU	yoyJ
spbT	yonS	yonR	yonP
yonO	hupN	yonK	yonJ
yonI	yonH	yonG	yonF
yonE	yonD	yonC	yonB
yonA	yomZ	alkA	yomY
yomX	yomW	yomV	yomU
youA	yomT	yomS	yomR
yomQ	adaA	yomP	yomO
yomN	yomM	yozP	yomL
youB	yomK	yomJ	cwlP
adaB	yomH	yomG	yomF
yomE	yomD	blyA	bhlA
bhlB	bdbB	sunS	bdbA
sunT	sunA	sunI	uvrX
yolD	yolC	yolB	yolA
ndhF	yokL	yokK	yokJ
yokI	yokH	yoyK	ybcC
yoyK	yokG	nukF	yokE
aacD	yokC	ybcF	yokB
sprA	ybcH	ybcI	ybzH
ybcL	ybcM	skfA	skfB
skfC	skfE	skfF	skfG
skfH	spoIVCA	arsC	arsB
yqcK	arsR	yqcI	rapE
phrE	yqzI	rttG	rttF
yqxJ	yqxI	cwlA	yqxH
yqxG	yqcE	yqcD	yqcC
yqcB	yqcA	yqbT	yqbS
yqbR	yqbQ	yqbP	yqbO
yqbNc	yqbNn	txpA	yqbM
yqbK	yqzN	yqbJ	yqbI
yqbH	yqbG	yqbF	yqbE
yqbD	yqbC	yqbB	yqbA
yqaT	yqaS	yqaR	yqaQ
yqaP	yqaO	yqaN	yqzO
sknM	yqaL	yqaK	yqaJ
yqaI	sknH	yqaG	yqdA
yqaF	sknR	yqaD	yqaC
yqaB	yueB	ydzTc	ydzT
ydzT	ydzT	ydzTn	ydiM
ydzU	ydzV	bsuMA	bsuMB
ydzWc	ydzWmc	ydzWmb	ydzW
ydzW	ydzWma	ydzWn	bsuRA
bsuRB	bsuRC	ydjB	ydjC

SW 5.1.1 PBSX prophage

xlyB	yjqA	pghB	xpdC
xkdA	xre	yjzJ	xkdB
xkdC	ykzK	xkdD	xtrA
xpf	xtmA	xtmB	xkdE
xkdF	xkdG	ykzL	xkdH
xkdI	xkdJ	ykzM	xkdK
xkdM	xkdN	xkzB	xkdO
xkdP	xkdQ	xkdR	xkdS
xkdT	xkdU	xkzA	xkdV
xkdW	xkdX	xepA	xhlA
xhlB	xlyA

SW 5.1.2 SP-beta prophage

sprB	yotM	yotL	yotK
yotJ	yotI	yotH	yotG
yotF	yotE	yotD	yotC
yotB	sspC	yosX	yosW
yosV	yojW	yosU	yosT
dutB	yosR	nrdFB	yosQ
nrdEB	nrdEB	nrdIB	yosL
yosK	yosJ	yosI	yosH
yosG	yosF	yosE	yosD
yosC	yosB	yosA	yorZ
yorY	yorX	yorW	yorV
mtbP	yorT	yorS	yorR
yorQ	yorP	yorO	yorN
yorM	dpoL	yorK	yorJ
yorI	yorH	yorG	yorF
yorE	yorD	yorC	yorB
yorA	pghZ	yoqY	yoqX
yoqW	yoqV	yoqU	yoqT
yoqS	yoqR	yoqP	yoqO
yoqN	yoqM	yoqL	yoqK
yoqJ	yoqI	yoqH	yoqG
yoqF	yoqE	yoqD	yoqC
yoqB	yoqA	yopZ	yopY
yopX	yopW	yopV	yopU
yopT	yopS	yopR	yopQ
yopP	yopO	yopN	yopM
aimP	aimR	yopJ	yopI
sieB	yopG	yopF	yopE
yoyH	yoyI	yopD	yopC
yopB	yopA	yonX	yonV
yonU	yoyJ	spbT	yonS
yonR	yonP	yonO	hupN
yonK	yonJ	yonI	yonH
yonG	yonF	yonE	yonD
yonC	yonB	yonA	yomZ
yomY	yomX	yomW	yomV
yomU	youA	yomT	yomS
yomR	yomQ	yomP	yomO
yomN	yomM	yozP	yomL
youB	yomK	yomJ	cwlP
yomH	yomG	yomF	yomE
yomD	blyA	bhlA	bhlB
bdbB	sunS	bdbA	sunT
sunA	sunI	uvrX	yolD
yolC	yolB	yolA	yokL
yokK	yokJ	yokI	yokH
yoyK	yoyK	yokG	nukF
yokE	aacD	yokC	yokB
sprA

SW 5.1.3 Skin element

spoIVCA	arsC	arsB	yqcK
arsR	yqcI	rapE	phrE
yqzI	rttG	rttF	yqxJ
yqxI	cwlA	yqxH	yqxG
yqcE	yqcD	yqcC	yqcB
yqcA	yqbT	yqbS	yqbR
yqbQ	yqbP	yqbO	yqbNc
yqbNn	txpA	yqbM	yqbK
yqzN	yqbJ	yqbI	yqbH
yqbG	yqbF	yqbE	yqbD
yqbC	yqbB	yqbA	yqaT
yqaS	yqaR	yqaQ	yqaP
yqaO	yqaN	yqzO	sknM
yqaL	yqaK	yqaJ	yqaI
sknH	yqaG	yqdA	yqaF
sknR	yqaD	yqaC	yqaB

SW 5.1.4 Prophage 1

alkA	adaA	adaB	ndhF
ybcC	ybcF	ybcH	ybcI
ybzH	ybcL	ybcM	skfA
skfB	skfC	skfE	skfF
skfG	skfH

SW 5.1.5 Prophage 3

ydzTc	ydzT	ydzT	ydzT
ydzTn	ydiM	ydzU	ydzV
bsuMA	bsuMB	ydzWc	ydzWmc
ydzWmb	ydzW	ydzW	ydzWma
ydzWn	bsuRA	bsuRB	bsuRC
ydjB	ydjC

SW 5.1.6 Phage-related functions

xlyB

yueB

SW 5.2 Mobile genetic elements

ydcL	immA	immR	xis
ydzL	ydcO	helP	conQ
nicK	ydcS	ydcT	yddA
conB	conC	conD	conE
yddF	conG	cwlT	yddI
yddJ	yddK	rapI	phrI
yddM	yerB	pcrA

SW 5.2.1 ICEBs1

ydcL	immA	immR	xis
ydzL	ydcO	helP	conQ
nicK	ydcS	ydcT	yddA
conB	conC	conD	conE
yddF	conG	cwlT	yddI
yddJ	yddK	rapI	phrI
yddM

SW 5.2.2 Additional genes

yerB

pcrA

SW 6 Groups of genes

gyrA	linK	bifL	bifM
bifN	estB	icaC	yfiS
yfiU	mprF	sxzY	sxzZ
sxzA	yfhB	yfhC	yfhH
yfhI	yfhJ	spdL	folP
ephM	csbB	yfhO	yfhP
ygaB	ygaC	folB	ygaD
ygaE	ygzB	ygxA	folK
ygzA	ygzC	ygaJ	thiC
ygaK	katA	ssuB	ssuA
ssuC	ygaN	ygaO	yhzB
lysS	yhbD	yhbJ	yhcA
yhcB	yhcC	yhcD	yhcE
yhcG	yhcH	yhcI	yhcJ
dgcK	tcyP	yhcN	mncR
srtA	yhcU	glpW	yhcX
yhzG	yhxA	glpF	glpK
pgcA	yhcY	yhcZ	azr
phoA	citA	yhdF	bcaP
yhdH	yhdJ	asiMB	asiMA
plsC	yhdP	yhdR	yhdT
crcBA	crcBB	yhdX	mscY
yheN	nhaC	bmrC	bmrD
yheG	sspB	yheE	spaD
spaC	yheB	yheA	khtU
khtT	khtS	yhaR	yhzD
yhaQ	yhaP	yhaL	prsA
yhaJ	yhaI	scoC	yhaH
yhzF	trpP	ecsA	ecsB
ecsC	sndC	yhfA	yhgB
pbpF	hemY	yhgE	yhfC
yhfE	yhfF	gltT	yhfH
yhfI	yhfK	aprE	yhfO
yhfP	yhfQ	yhfS	yhfT
bioY	yhxC	yhzC	ctsR
comK	yhxD	yhjA	yhjC
yhjD	yhjE	sipV	yhjG
mcsA	glcP	yhjN	yhjO
yhjP	clpC	mblK	yisL
wprA	yizA	yisQ	yisU
yisX	yisY	yitE	yitF
yitG	yitH	yitI	samT
yitK	yitL	yitM	yitO
yitP	ispD	yitQ	yitR
nprB	yitT	yizC	yitV
ispF	yitY	yitZ	yjzC
gltX	yjzD	yjaU	fabF
appD	appF	appAn	appAc
appB	appC	trpS	oppA
oppB	oppC	oppD	oppF
yjbB	yjbE	cysS	cwlQ
yjbK	yjbL	ppnKA	kefQ
thiG	yjcA	yjzK	yjzE
yjcF	yjcG	yjcH	yjcL
yjcM	yjcN	yjzF	yjzG
yjcO	yjcP	yjcQ	yjcR
yjcS	yjdA	secE	yjdB
manR	manP	yjdF	yjdG
yjzH	yjdJ	ctaO	yjfA
yjfB	yjfC	yjgA	rplK
yjhA	yjiA	yjzI	yjjA
yjkA	yjkB	yjlA	yjlB
yjlC	ndh	exuM	exuT
yjnA	yjoA	rplJ	phrA
yjpA	xlyB	yjqA	xre
rplL	xkdG	rlmG	xkdJ
xkdK	xkdM	rpoB	rpoC
xepA	xhlA	xhlB	xlyA
spoIISA	pitB	ykaA	steT
ykcB	ykcC	htrA	dppA
dppB	dppC	rpsL	dppD
dppE	ykfD	ykhA	rpsG
ykjA	ykkA	ykkB	gdnC
gdnD	fusA	ykzN	metE
rsbRB	tufA	thiX	thiW
thiV	thiU	ykoG	ykoH
ykoI	ykoJ	ybaC	mgtE
ykzB	ykoL	ykoM	ykoS
ykoT	dgcW	ykoX	ykoY
rsgI	rpsJ	htpX	ktrD
ykzP	ykrP	mtnA	rplC
mtnK	ykvA	rplD	eag
kinD	motB	motA	ykvI
rplW	ykvO	ykzQ	ykvQ
ykzR	rplB	ykvR	ykvS
ykzS	ykvU	stoA	pfeT
rpsS	glcT	ptsG	ptsH
ptsI	ykwB	rplV	mcpC
ohaC	ykwD	pbpH	kinA
dapX	ykzT	cheV	kre
rpsC	ykuC	ppeE	ykzU
ykuH	ykuI	ykuJ	rplP
ykuK	ykuL	ykuO	dapH
dapI	mscT	rpsQ	yknU
yknV	skiW	skiX	skiY
skiZ	fruA	rplNA	sipT
ykoA	panE	mreBH	kinC
rplX	ykqA	ktrC	rnjA
ykrA	ykzV	ykyA	rplE
pdhB	pdhC	pdhD	slp
rgpA	yktA	yktB	rpsNA
suhB	ykzC	yktD	nprE
ylaA	ylaB	sigQ	ylaE
rpsH	ylaF	ylaH	ylaI
ylaJ	ylaK	ylaL	ylaN
ftsW	rplF	pycA	ctaA
ctaB	ctaC	ctaD	ctaE
ctaF	ctaG	ylbA	ylbB
rplR	ylbG	coaD	spoVV
rpsE	ylbK	ylbL	ylzH
ylbN	gerR	ylbP	rpmD
mraZ	rsmH	ftsL	pbpB
spoVD	murE	mraY	murD
spoVE	guaB	murG	murB
divIB	ylxX	sbp	ftsA
ftsZ	bpr	secY	spoIIGA
sigE	ylmE	adk	sepF
ylmG	ylmH	divIVA	ileS
lspA	pyrP	pyrB	pyrAB
ybzG	cysP	infA	tcaB
yloC	gmk	coaBC	priA
fmt	prkC	rsgA	spoVM
rpsM	yloU	yloV	plsX
fabD	fabG	acpA	rpsK
rnc	smc	ftsY	ylqB
ffh	rpsP	ylqC	ylqD
rpoA	trmD	rplS	rbgA
ylqG	sucC	sucD	rplQ
topA	codY	flgB	flgC
fliF	ecfA	fliG	fliJ
ylxF	flgE	fliL	ecfAB
fliM	fliY	cheY	fliZ
fliP	fliQ	fliR	flhB
flhA	flhF	ecfT	cheB
cheA	swrB	rpsB	truA
tsf	pyrH	frr	uppS
cdsA	dxr	rasP	proS
polC	nusA	rulR	infB
ribC	rpsO	ylxY	asd
dapG	rplM	dapA	spoIIIE
bcbE	ymfF	ymfH	rpsI
ymfKn	ymfKc	rodZ	pgsA
cinA	recA	pbpX	rny
ybaJ	dacA	ymzD	ymcC
ymaE	ymzEn	ymzEc	pghC
ebrB	ebrA	gerD	ymzC
ymzA	nrdI	nrdE	nrdF
ymaB	kbaA	hflX	ynbB
glnA	ynxB	ynzF	ynzG
ynaB	ynaC	ynaE	ynaF
ynaG	ynzI	ynaI	xynP
yncB	yncC	alrB	ynzJ
yncM	ynzK	tatAC	flvS
yndD	yndE	yndF	yndG
yndH	yndJ	yndK	pghL
pdxS	ynzC	tktA	yneF
ccdA	yneI	yneJ	yneK
yneN	yneP	yneQ	yneR
plsY	yneT	parE	parC
ynfCn	alsT	eglS	ynfE
xynC	xynD	yngA	yngC
yngL	dacC	yoeA	iseA
yoeC	yoeD	ggt	yogA
gltA	yoxD	yoaA	yoaB
yoaC	yoaF	yozQ	yoaH
yoaI	exlX	yoaK	pelB
yozS	yoaO	yoaP	yoaS
yozG	yoaT	yoaW	yoaZ
ybaR	penP	yobA	yozU
yobB	xynA	yozV	yozH
ybaS	yozI	yobF	yozW
yozX	yozJ	yozY	yozZ
phrK	yozM	yobI	yoyA
S717_BsrG	feuC	rttM	yobM
yobN	yobO	feuB	yobR
yobT	yobU	yobV	yobW
yocA	yozB	yocB	feuA
yocC	desE	desK	desR
walL	bsrB_6S_ssrSA	yozC	dhaS
sodF	yocR	yocS	odhB
odhA	yojO	mdtK	rsbRC
yojF	yoyC	yojE	yojA
yodA	yoyD	yodF	murP
ctpA	yodI	pgpB	kamA
kamB	yodQ	yodR	yodS
yodT	murQ	phyC	ybbJ
yotH	yotF	ybbK	yotD
yotC	nrdFB	nrdIB	yorK
yoqS	yoqN	rsiW	cdaA
yopX	glmM	sieB	yopG
yopD	yopC	yopA	yonX
spbT	yonS	glmS	yonR
yonJ	yomQ	serS	yomL
youB	yomK	cwlP	blyA
bdbB	bdbA	sunT	sunA
sunI	yolB	yolA	ndhF
S810_asrG	yokH	yoyK	ybcC
yoyK	nukF	ybcF	yokB
spsMc	dinF	ypmT	ypmS
ypmR	ybcH	scuA	ypmP
yplQ	ypkP	dfrA	thyB
ypjQ	ypjP	ybcI	rsmJ
ypgR	ugtP	queP	ybcL
ypzF	ypbS	dynA	pbuX
ybcM	kdgT	rnpB_RNaseP-bact-b_rnpB	gpsB
ypsA	ypqE	yppF	yppE
ponA	ypoC	dnaD	tseB
ypmA	skfE	birA	cca
dapB	ypjD	ypjC	skfF
ypjB	ypjA	qcrC	qcrB
qcrA	ypiF	ypiB	ypiA
aroA	skfG	skfH	aroF
ndk	folEA	hbs	ybdG
yphF	yphE	der	yphA
ypzI	ybdJ	rpfA	cmk
sleC	sleB	prsW	gudB
ybdK	ypbF	ypbE	ypbD
recS	gmmB	fmnP	ybzI
ypzE	serA	rsiX	sigX
resE	resD	resC	ybdM
resB	resA	spmA	dacB
ypuI	scpA	ypuF	ybdN
ypzK	sipS	ypzC	ybdO
ypzJ	ypuC	ypuC	ypuB
ybxG	spoVAF	spoVAD	spoVAC
spoVAB	spoVAA	spoIIAA	dacF
pupG	deoB	yqzK	yqkK
mleN	yqkF	yqkE	yqkD
yqkC	ybxI	yqkB	yqkA
yqjZ	yqjY	yqzH	yqjV
yqjU	yqjU	yqjT	dsdA
yqjQ	yqjP	yqjN	S903
rnz	gndA	mifM	oxaAB
yqjF	ybeC	yqjE	yqjD
yqjA	artR	artQ	artP
glpQA	bmr	bkdAB	glpT
yqzF	yqiH	yqiG	spo0A
dxs	accC	accB	ybeF
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
yqhV	ybfA	yqhS	yqhR
yqhQ	yqhP	yqhO	yqhL
ybfB	tasA	sipW	tapA
ybfEc	yqzG	comGG	comGF
comGE	comGD	comGC	comGB
comGA	yqxL	yqhB	rsbRD
yqgY	yqgX	yqgW	yqgV
yqgU	yqgT	ybfF	yqgQ
glpG	folN	rpmGA	yqgM
yqgL	ybfG	yqzD	yqzC
pstBA	pstA	pstC	pstS
pbpA	yqgE	sodA	ybfH
yqgC	yqgB	yqgA	ispG
yqfW	zur	yqfU	yqfT
ispH	yqfO	trmK	cccA
sigA	dnaG	antE	yqxD
glyS	glyQ	yqzL	mpr
era	unpK	rnrY	pgpH
phoH	yqfB	floA	nfeDA
yqeY	yqeW	dnaK	hrcA
lepA	spoIIP	holA	pssA
yqzM	comEC	comEA	yqeM
yqeK	nadD	yaaI	ybfM
rgpH	yqeG	yqeF	cwlH
psd	yqeD	yqeC	yqeB
nucB	yqcK	ybfN	phrE
rttF	yqxI	ybfO	yqxG
yqbO	yqbNc	yqbNn	txpA
ratA_ratA	S977	yqbM	gltP
yqbB	yqbA	gamP	sknR
yqaD	yqaC	yrkS	psiE
yrkQ	yrkP	yrkO	yrkN
ybgB	yrkK	yrkJ	yrkI
yrkH	yrkF	yrkE	yrkD
yrzM	yrkB	blt	yrkA
yrzO	yrdR	ybgF	czcD
yrdN	yrdK	brnQ	azlD
azlC	yrdF	yrdDc	yrdDm
yrdDn	yrdC	yrdB	yrdA
yrpB	glnT	yrpD	zinT
yrpG	yraO	prpF	csn
yraL	yraK	yraJ	yraI
yraH	glnJ	adhB	yrzP
sacC	glnL	levG	levF
levE	levD	levR	yrhP
yrhO	rsiV	oatA	yrhK
S1022_ncr1175_surF	cypB	yrhH	yrzI
yrhG	yrhF	yrhE	yrhD
yrhC	mccB	scr_Bacteria-large-SRP_scr	gudP
yrrT	pbpI	yrrO	yrrN
yrrL	yrzB	yrzL	alaS
yrrI	glnQ	glnH	glnM
glnP	yrzQ	yrzR	yrrB
mnmA	iscSA	bsrA_6S_ssrSB	aspS
hisS	apt	recJ	yrvD
yrvC	secDF	spoVB	yrbG
yrbF	tgt	yrzS	csbX
yrbE	yrzF	S1052	yrzH
yrzH	yrzT	yrbC	nadB
obgE	spo0B	ycbK	rpmA
rppA	rplU	spoIVFB	spoIVFA
minD	minC	mreD	mreC
ycbL	mreB	ysxA	comC
folC	valS	yszA	dnaX
ycbM	hemB	ysxD	engB
lonB	tig	leuC	leuB
leuA	ilvC	ycbO	ilvB
ysnE	ysnF	ysnB	rdgB
rcmE	ysmA	sdhB	sdhA
sdhC	yslB	ycbP	trxA
fadB	yshE	yshB	zapA
pheT	pheS	glcD	glcF
ysfE	yczK	cstA	araQ
araP	araN	egsA	araL
phoD	abnA	ysdB	ysdA
rplT	infC	yscB	pftB
tatAD	pftA	lytT	lytS
ytxB	dnaI	dnaB	ebfC
tatCD	ytbD	ytbE	coaE
spcF	phoR	phoP	mdh
icd	citZ	ytvI	ytzA
pyk	pfkA	ycbU	accA
accD	dnaEC	ytrI	ytzJ
lmrB	ytpI	ytnM	sndA
ribR	tcyN	tcyM	tcyL
tcyK	tcyJ	ytkK	ytzD
ytzD	argG	yteJ	sppA
estA	ytcJ	ytcI	sspA
braB	ezrA	yczC	msrC
rpsD	tyrS	ytzK	yccF
acuB	motS	motP	aroX
brxJ	ytxH	ytxG	natK
murC	ytoQ	ytoP	ytzB
natR	ytnP	ytmP	ytlR
ytlQ	ytlP	ytkP	ytjP
natA	ythQ	ythP	murJ
ytfP	opuD	natB	rmgU
rmgS	rmgP	rmgR	ytcQ
ytcP	ytbQ	ytaP	msmE
msmF	msmG	ycdA	melA
ytwF	leuS	ytvB	yttB
yttA	bceB	bceA	bceS
bceR	ytrF	ytrE	ytrD
ytrC	ytrB	ytqA	ytqB
ytpA	ytnA	metK	ycdB
ytmB	ytmA	ytlA	ytlC
ytlD	ytkC	ytzI	ycdC
ytkA	ytiB	rpmEB	ythA
ythB	mntD	mntC	cwlK
mntB	mntA	menC	menE
menB	menD	yaaL	ytdA
ytcA	ytcB	ytcC	glgP
ycdF	ycdG	znuA	znuC
thiT	floT	nfeDB	yuaE
yuaD	znuB	bslA	ktrA
ktrB	yubF	yubD	cdoA
yceB	uppP	yubA	tlpB
mcpA	tlpA	mcpB	yuzH
yugS	yugP	yceD	yuzI
mstX	kbfO	yugN	yugM
pgi	bdhK	bdhJ	yceE
yugI	yugH	yugG	yugF
yugE	kinB	kapB	bofA
yceF	yuxJ	pbpD	yuxK
yufK	maeL	maeM	nupN
nupO	nupP	nupQ	maeN
yufS	mrpA	mrpB	mrpC
mrpD	mrpE	mrpF	mrpG
yuxO	comA	comP	comQ
pncB	niaP	yueI	yueH
yueF	yueE	bznD	yueC
yueB	yukAB	yukC	yukE
adeR	yceJ	yukJ	mbtH
dhbF	dhbC	besA	yuiH
bioYB	hisP	pepA	yuiD
yuiB	yuiA	trxBB	opuAA
yuzG	dapF	yutK	yuzB
opuAB	yuzD	yutI	yuxL
cotNH	nucF	opuAC	yutE
yutD	fisB	yunD	yunE
yunF	amhX	yunG	pucJ
pucK	yuzJ	ycgA	bsnA
frlP	ycgB	frlM	frlN
frlO	frlB	yurQ	dadA
amyE	sufB	sufU	sufS
sufD	sufC	yuzK	lctE
metQ	metP	metN	yusD
yusF	yusG	lctP	fadE
mdtP	yusQ	mdr	yusR
yusS	yusU	feuV	yusYc
yusYn	yusZ	htrB	cssR
cssS	yuxN	yvzF	gerAA
gerAB	gerAC	ycgF	liaR
liaS	liaF	liaI	yvqJ
yvqK	yvrA	yvrB	yvrC
yvrD	yvrE	yvrG	yvrH
oxdC	ycgH	rsiO	yvrN
yvrO	yvrP	fhuC	fhuG
fhuB	fhuD	lysP	yvsG
ltaSP	modA	modB	yvgO
nhaK	nadE	yvgT	bdbC
bdbD	cadA	copA	csoR
tmrB	yvaD	yvaE	yvaG
ssrA_tmRNA_ssrA	estA	secG	yvaM
yvaQ	opuBD	aroK	opuBC
opuBB	opuBA	sdpB	sdpI
ycgJ	opuCD	opuCC	opuCB
opuCA	yvbG	yvbH	yvbI
yvbJ	yvbK	eno	pgm
tpiA	pgk	gapA	araE
yvbT	cyeB	yvbW	yvbX
lutC	lutB	yvfU	yvfT
yvfS	yvfR	ganB	ganA
ganQ	ganP	ganS	dnaA
lutP	yvfG	epsL	epsK
epsG	epsE	epsC	epsB
epsA	putP	pnbA	yveG
yveF	pbpE	sacB	levB
aspP	psmA	psmB	yvdQ
clpP	mdxJ	mdxG	mdxF
mdxE	mdxD	yvdD	yvdC
ycgQ	yvdB	yvdA	yvcT
psdB	psdA	psdS	psdR
yvzJ	yvcN	crh	ycgR
mgfK	trxB	cwlO	yvcD
bmrA	ycgS	yvzA	yvcB
yvcA	yvpB	pelC	hprF
ppaX	yvoD	lgt	yvnA
pchE	yvlA	yvkN	csbA
yvkC	yvkA	minJ	swrAAc
swrAAn	ftsX	ftsE	cccB
yvjA	prfB	secA	hpf
fliD	hag	yviE	flgK
flgN	flgM	comFC	comFA
nasA	degU	degS	yvyE
tagV	tagO	tuaF	tuaE
tuaD	tuaB	tuaAc	tuaAn
lytB	yciB	lytA	tagU
mnaA	gtaB	yvzH	ggaB
ggaA	yvzI	yczL	yvzE
tagH	tagG	tagF	tagE
tagD	tagA	tagB	zinU
lytD	gerBA	gerBB	gerBC
ywtG	tagT	pgdS	edmS
yckA	rbsD	rbsA	rbsC
rbsB	yckB	ywsA	alsD
ywrK	ywrJ	cotB	NA
ywrF	ywrE	hpxW	chrB
chrA	ywqO	ywqN	yckC
ywqG	uglF	ptkA	tkmA
ywzD	ywqB	ywpJ	ssbB
ywpG	ywpF	ywpE	ywpD
mscL	fabZ	flhP	flhO
mbl	nin	ywoG	ywoF
pucI	ywoD	ywoB	amtB
glnK	bcrC	nucA	ywnJ
spoIIQ	ywnG	ywnF	clsA
ywnC	ywnB	tlpC	ywnA
ywzE	ywzF	ywmF	fdhD
ywmE	ywmD	ywmC	spoIID
murAA	ywzB	atpC	atpD
atpG	atpA	atpH	atpF
atpE	atpB	atpI	glyA
mntP	ywlA	ywkF	prfA
ywkD	ywkB	srfAA	tal
fbaA	spo0F	ywjG	pyrG
srfAB	fadF	clsB	ywjB
ywjA	comS	clsC	narI
narH	narG	ywiC	narK
argS	srfAC	ywiB	albB
albC	albD	albF	albG
ywhL	ywhK	phrF	ywhH
pbpG	ywhD	srfT	ywhC
hmtB	mmr	ywgB	ycxB
ywgA	ywfO	ywzC	ywfM
pta	hemQ	ycxC	bacE
ywfA	rocC	rocA	bslB
spsG	sfpAc	ywdK	ywdJ
ywdI	ywdH	sfpAn	ywdF
ywdE	ywdD	ywdA	sacP
nirC	sacT	yczE	ywcI
vpr	ywcH	rodA	ywcE
qoxD	qoxC	qoxB	qoxA
tcyC	ywcD	vbfB	vbfA
efeB	tcyB	efeM	efeU
cidA	cidB	ywbF	ywbE
tcyA	ywbA	epr	sacX
sacY	ywaF	tyrZ	eapD
menA	ywzH	dltB	dltD
licA	licC	licB	licR
yxlH	yxlG	yxlF	yxlC
yxlA	xpaC	cydD	cydC
cydB	cydA	cimH	yxkI
yxkH	msmX	yxkF	aldY
gdnE	yxkC	yxkA	yxjN
yclE	yxjM	yxjL	yxjJ
dtpT	yxjF	yxjC	nupG
yxiTc	yclG	yxiTn	citH
bglS	licT	yxiP	yxiO
yxiM	yczF	yxzI	yxzJ
yxiK	yxiJ	yxiI	yxzG
yxiH	yxiG	yxzC	yxiF
gerKA	wapI	wapA	yxxF
yxiE	bglP	yxxE	rtbE
gerKC	yxiC	yxiB	abnB
yxzL	hutM	gerKB	nupC
yxxB	yxeR	yxeQ	yxeO
yxeN	yclH	yxeM	yxeJ
hadM	yxeG	yxeF	yclI
yxeC	frxB	yxeA	tpeM
tpeL	tpeK	tpeJ	yclJ
iolF	iolE	yclK	yxcE
yxcD	csbC	yxcA	yxbG
aldX	yxbD	yxbC	yxbB
yxbA	yxnB	yxaM	yxaL
yxaJ	yxaI	yxaH	phrC
yxnA	yxzK	yxaC	yxaB
glxK	gntP	ahpC	ahpF
ptsJ	yyzN	liaM	liaL
liaK	liaD	yydD	yydC
yydB	yyzF	yycS	yycR
yyzG	yycQ	yycN	phrG
pbtN	argI	rocE	yyzO
htrC	walI	walH	pbtO
walK	walR	purA	yycE
dnaC	yaaO	pbtP	yycC
yycB	yycA	gdpP	yybS
yyzH	pbtQ	ppaC	yybP
yybO	yyzI	yyzJ	yyzK
ycnB	yyzL	yybN	yybM
yybL	yybK	yybJ	yybH
yybG	yybF	yybD	yybC
yybB	yyaT	yyaS	yyaQ
yyaP	tetB	yyaO	yyaN
yyaM	yyaK	yyaJ	yyaH
ycnE	rpsR	ssbA	engD
yyzM	parA	yyaB	nocA
mnmE	oxaAA	rnpA	tmk
glcU	cutI	cutJ	ycnL
mtlA	mtlF	ycsA	darA
sipU	yczH	yczO	pxpG
pxpI	dnaN	yaaR	yczI
yczJ	pbpC	ycsN	mtlR
ydaB	ydaC	ydaD	holB
ydaF	amj	ydzA	epsJ
ydaL	ydaM	kimA	poxB
dnaH	ydzK	mntH	ydbA
ydbB	ydbC	trmNF	dctS
dctR	dctP	ydbI	ydbJ
ydbK	ydbL	ydbM	yazA
fbpB	ydbO	ddlA	murF
cshA	ydbS	ydbT	acpS
ydcC	alrA	rsbRA	rsbS
abrB	rsbV	ydcF	ydcG
tex	ydcK	metS	ydzL
ydcO	conQ	ydcS	ydcT
yddA	conB	conC	conD
conE	yddF	dayD	conG
yddI	yddJ	yddK	phrI
yddM	yddN	yddQ	yddR
yddS	ydzM	yddT	ydzN
ydzE	ydeD	ydeG	ydeH
ydeI	ydeJ	ydeK	ydeM
ydeN	ydzF	ydeO	prtG
ydeR	ydzO	ydzSn	ydzSc
ydfB	ydfC	ydfE	ydfG
ydzP	ydzQ	ydfH	ydfI
ydfJ	ydfK	mneP	ydzH
ydzR	ydfR	ydfS	ydgB
ydgD	ydgF	ispE	ydgH
ydgI	ydgK	ydhB	ydhF
phoB	ydhH	ydhI	ydhJ
pbuE	gmuB	gmuA	gmuC
gmuG	ydhUc	ydhUn	spoVG
tsaB	glmU	tsaD	tatAY
tatCY	ydiK	ydiL	groES
prs	groEL	ydzTc	ydzT
ydzT	ydzT	ydzTn	ydiM
ydzU	ydzV	bsuMA	bsuMB
ydzWc	ydzWmc	ydzWmb	ydzW
ydzW	ydzWma	ydzWn	pth
ydjB	ydjC	ydjG	ydjH
ydjI	ydjJ	iolT	bdhA
walM	ydjN	ydzJ	ydjO
ydjP	cotA	gabP	ydzX
mneS	yeaC	yeaD	yebA
pbuG	yebC	yebD	yebE
yebG	yabM	purL	yabN
yecA	yezF	yerA	yerB
yerD	pcrA	ligA	yerH
yerI	sapB	opuE	gatC
spcP	gatA	gatB	srfP
yeeB	spcQ	yeeC	yeeD
yezA	yezG	yeeG	phrH
yeeI	divIC	yesE	yesF
yesK	yesL	yesM	yabR
yesN	yesO	rhgP	rhgQ
rhgR	yesU	lplA	lplB
lplC	yetF	yetH	yetI
yetI	yezD	calJ	yetK
yetN	spoIIE	ltaSA	spmH
spmG	yfnC	gyrB	pynN
mtrA	vdhT	yfmQ	copO
yfmN	yfmJ	yfmI	yfmG
fecF	fecE	fecD	prkT
fecC	yfmB	pelA	maeS
citS	citT	yflP	citM
tilS	acyP	yflI	nagP
ltaSB	yflD	yflB	yflA
yfkT	yfkS	yfkR	yfkQ
treP	ftsH	yfkN	yfkL
yfkK	rbn	yfkF	chaA
mscC	yfkA	yfjT	yfjR
yfjQ	yfzA	yfjM	yacD
yfjF	yfjE	yfjD	yfjC
yfjB	yfjA	malA	malP
yfiB	yfiC	catD	yfiG
yfiH	yfiI	linJ

SW 6.1 Essential genes

gyrA	folP	folB	folK
lysS	asiMA	plsC	prsA
ispD	ispF	gltX	fabF
trpS	cysS	ppnKA	secE
rplJ	xre	rplL	rpoB
rpoC	rpsL	rpsG	fusA
tufA	mgtE	rpsJ	rplC
rplD	rplB	rpsS	rplV
dapX	rpsC	rplP	dapH
dapI	rpsQ	rplNA	rplX
rnjA	rplE	rpsNA	rpsH
ylaN	ftsW	rplF	rplR
coaD	rpsE	rpmD	ftsL
pbpB	murE	mraY	murD
murG	murB	divIB	ftsA
ftsZ	secY	adk	ileS
infA	gmk	coaBC	priA
rpsM	plsX	fabD	fabG
acpA	rpsK	rnc	smc
ftsY	ffh	rpsP	rpoA
trmD	rplS	rbgA	rplQ
topA	rpsB	tsf	pyrH
frr	uppS	cdsA	dxr
proS	polC	nusA	infB
ribC	rpsO	asd	dapG
rplM	dapA	rpsI	pgsA
nrdI	nrdE	nrdF	yneF
plsY	parE	parC	glmM
glmS	serS	dfrA	rnpB_RNaseP-bact-b_rnpB
dnaD	birA	cca	dapB
aroA	aroF	folEA	hbs
der	cmk	scpA	rnz
dxs	accC	accB	ispG
ispH	sigA	dnaG	glyS
glyQ	era	rnrY	holA
nadD	yqeG	rttF	sknR
scr_Bacteria-large-SRP_scr	alaS	mnmA	iscSA
aspS	hisS	obgE	rpmA
rppA	rplU	mreD	mreC
mreB	folC	valS	dnaX
engB	rcmE	trxA	pheT
pheS	rplT	infC	dnaI
dnaB	coaE	accA	accD
dnaEC	rpsD	tyrS	murC
leuS	metK	menC	menE
menB	menD	mrpA	mrpB
mrpC	mrpD	mrpE	mrpF
mrpG	pncB	trxBB	dapF
sufB	sufU	sufS	sufD
sufC	nadE	aroK	eno
pgm	gapA	dnaA	trxB
prfB	secA	tagO	tuaB
mnaA	tagH	tagG	tagF
tagD	tagA	tagB	fabZ
mbl	murAA	prfA	pyrG
argS	rodA	menA	yxlC
wapI	rtbE	walK	walR
dnaC	ppaC	rpsR	ssbA
rnpA	tmk	dnaN	holB
ddlA	murF	acpS	alrA
metS	ispE	tsaB	glmU
tsaD	groES	prs	groEL
bsuMA	bsuMB	pth	pcrA
ligA	gatC	gatA	gatB
yezG	divIC	gyrB	tilS

SW 6.10 Pseudogenes

appAn	appAc	ymfKn	ymfKc
ymzEn	ymzEc	yoyK	yoyK
ypuC	ypuC	S903	yqbNc
yqbNn	yrdDc	yrdDm	yrdDn
yusYc	yusYn	swrAAc	swrAAn
tuaAc	tuaAn	yvzH	yvzI
yvzE	sfpAc	sfpAn	yxiTc
yxiTn	ydzSn	ydzSc	ydhUc
ydhUn	ydzTc	ydzT	ydzT
ydzT	ydzTn	ydzV	ydzWc
ydzWmc	ydzWmb	ydzW	ydzW
ydzWma	ydzWn	yetI	yetI

SW 6.11 Efp-dependent proteins

yhjG	yitG	xkdJ	dppD
ykwB	ctaD	ylxX	sigE
fmt	topA	ggt	gltA
yodT	yonJ	yomQ	kdgT
yqjN	spoIIP	ybfO	yqbA
recJ	valS	sndA	ytcP
ytcC	besA	yvdQ	mgfK
srfT	yyaN	ydgB	gmuC
cotA	yesN

SW 6.12 Secreted proteins

estB	sxzY	mncR	phoA
aprE	wprA	nprB	oppA
yjcM	yjfA	xlyB	xkdG
xkdK	xkdM	xepA	xlyA
htrA	nprE	pbpB	bpr
ylqB	flgB	flgC	flgE
pbpX	dacA	yncM	eglS
xynC	xynD	dacC	ggt
exlX	pelB	yoaW	penP
xynA	feuA	walL	phyC
blyA	bdbA	yolB	yolA
ybdN	ybdO	dacF	ybxI
artP	glpQA	yqiH	tasA
pstS	pbpA	mpr	cwlH
nucB	yqxI	ybfO	yrpD
zinT	csn	sacC	phoD
abnA	estA	msmE	mntA
bslA	bsnA	amyE	metQ
fhuD	yvgO	ganB	sacB
cwlO	pelC	fliD	hag
flgK	flgM	lytD	tagT
pgdS	rbsB	flhP	flhO
ywoF	bslB	vpr	efeB
epr	eapD	yxkC	bglS
wapA	abnB	frxB	yxaL
liaD	pbtQ	pbpC	epsJ
ydhF	phoB	gmuG	walM
ydjN	ltaSA	fecC	pelA
ltaSB	yfkN	yacD

SW 6.2 Membrane proteins

bifL	bifM	bifN	icaC
yfiS	yfiU	mprF	sxzY
sxzZ	sxzA	yfhI	spdL
csbB	yfhO	ygaD	ygaE
ygzB	ssuB	ssuA	ssuC
ygaO	yhbJ	yhcA	yhcC
yhcE	yhcG	yhcH	yhcI
yhcJ	dgcK	tcyP	yhcN
srtA	glpF	bcaP	yhdH
asiMB	asiMA	plsC	yhdP
yhdT	crcBA	crcBB	mscY
nhaC	bmrC	bmrD	spaD
spaC	khtU	khtT	khtS
yhaR	yhaQ	yhaP	yhaL
prsA	yhaJ	yhaH	yhzF
trpP	ecsA	ecsB	yhfA
pbpF	hemY	yhgE	yhfC
gltT	yhfQ	bioY	sipV
glcP	yhjN	yhjO	yhjP
yisL	yisQ	yisU	yitE
yitG	samT	yitM	yitO
yitP	yitQ	yitR	yitT
yitZ	yjzD	appD	appF
appAn	appB	appC	oppA
oppB	oppC	oppD	oppF
yjbB	yjbE	cwlQ	kefQ
yjcA	yjzE	yjcP	secE
manP	yjdJ	ctaO	yjhA
yjkA	yjkB	yjlA	ndh
exuM	exuT	yjnA	rplL
rpoB	rpoC	xhlA	xhlB
spoIISA	pitB	steT	ykcC
htrA	dppB	dppC	dppD
dppE	ykfD	ykjA	gdnC
gdnD	tufA	thiX	thiW
thiV	thiU	ykoH	ykoI
mgtE	ykoS	ykoT	dgcW
ykoX	ykoY	rsgI	htpX
ktrD	ykrP	mtnK	kinD
motB	motA	ykvI	ykvU
stoA	pfeT	ptsG	mcpC
pbpH	ykuC	ykuH	mscT
yknU	yknV	skiW	skiX
skiY	skiZ	fruA	sipT
ykoA	mreBH	kinC	ktrC
ykyA	pdhB	pdhC	slp
ylaA	ylaB	sigQ	ylaF
ylaH	ylaJ	ftsW	pycA
ctaA	ctaB	ctaC	ctaD
ctaE	ctaF	ctaG	spoVV
ylbL	ftsL	pbpB	spoVD
mraY	spoVE	murG	divIB
ylxX	sbp	ftsA	ftsZ
secY	spoIIGA	sepF	divIVA
lspA	pyrP	pyrAB	cysP
tcaB	prkC	spoVM	plsX
ftsY	fliF	ecfA	fliG
fliJ	flgE	fliL	ecfAB
fliM	fliY	fliZ	fliP
fliQ	fliR	flhB	flhA
flhF	ecfT	cheA	swrB
rpsB	cdsA	rasP	spoIIIE
bcbE	rodZ	pgsA	pbpX
rny	dacA	ymzD	pghC
ebrB	ebrA	gerD	kbaA
ynaG	xynP	yncC	tatAC
yndD	yndE	yndF	yndG
yndJ	yndK	pghL	yneF
ccdA	yneJ	yneK	yneN
plsY	ynfCn	alsT	yngA
yngC	yngL	yoeA	iseA
yoaB	yoaF	yozQ	yoaH
yozG	yoaT	ybaR	ybaS
yobI	feuC	rttM	feuB
yobW	yocB	feuA	desE
desK	sodF	yocR	yocS
odhB	mdtK	rsbRC	yojA
yodF	ctpA	yodI	yoqS
yoqN	rsiW	cdaA	yopX
sieB	yopG	yopD	yopC
yopA	yonX	yonS	yonR
yomK	cwlP	bdbB	sunT
sunA	sunI	ndhF	yokB
spsMc	dinF	ypmT	ypmS
scuA	ypmP	yplQ	ypkP
rsmJ	ugtP	queP	ybcL
dynA	pbuX	ybcM	kdgT
gpsB	ponA	tseB	skfE
ypjC	skfF	ypjB	ypjA
qcrC	qcrB	qcrA	ybdG
yphA	sleC	sleB	prsW
ybdK	ypbE	ypbD	recS
fmnP	ypzE	serA	rsiX
sigX	resE	resC	resB
resA	spmA	dacB	ypuI
sipS	ypzC	ybxG	spoVAF
spoVAD	spoVAC	spoVAB	spoVAA
mleN	yqjV	yqjU	yqjU
yqjT	mifM	oxaAB	ybeC
yqjA	artR	artQ	artP
bmr	glpT	yqzF	ybeF
spoIIIAH	spoIIIAG	spoIIIAF	spoIIIAE
spoIIIAD	spoIIIAC	spoIIIAB	spoIIIAA
yqhV	yqhR	yqhQ	yqhP
yqhO	yqhL	ybfB	sipW
tapA	ybfEc	yqzG	comGG
comGF	comGE	comGD	comGC
comGB	comGA	yqxL	yqhB
rsbRD	yqgY	yqgU	yqgT
ybfF	glpG	ybfG	yqzD
yqzC	pstBA	pstA	pstC
pstS	pbpA	yqgE	ybfH
yqgC	yqgB	yqgA	yqfU
yqfT	cccA	unpK	pgpH
yqfB	floA	nfeDA	yqeW
spoIIP	pssA	comEC	comEA
ybfM	psd	yqeD	yqeB
yqcK	yqxG	txpA	yqbM
gltP	yqbB	gamP	yqaD
yqaC	psiE	yrkQ	yrkO
ybgB	yrkK	yrkJ	blt
yrkA	yrdR	ybgF	czcD
yrdN	brnQ	azlD	azlC
glnT	yraO	glnJ	levG
levF	levE	yrhP	rsiV
oatA	yrhK	cypB	yrhG
yrhF	mccB	gudP	pbpI
yrrI	glnQ	glnH	glnM
glnP	mnmA	yrvD	secDF
spoVB	yrbG	yrbF	tgt
csbX	yrbE	ycbK	spoIVFB
spoIVFA	minD	minC	mreD
mreC	mreB	comC	ycbM
engB	lonB	leuA	ycbO
sdhB	sdhA	sdhC	ycbP
zapA	cstA	araQ	araP
araN	ysdB	ysdA	rplT
pftB	tatAD	pftA	lytT
lytS	tatCD	ytbD	spcF
phoR	phoP	mdh	ytvI
ytzA	ytrI	lmrB	ytnM
tcyN	tcyM	tcyL	tcyK
tcyJ	yteJ	sppA	braB
ezrA	yczC	motS	motP
ytxG	natK	natA	ythQ
ythP	murJ	opuD	natB
rmgP	rmgR	ytcQ	ytcP
msmE	msmF	msmG	ycdA
ytvB	yttB	yttA	bceB
bceA	bceS	ytrF	ytrE
ytrD	ytrC	ytrB	ytnA
ytlA	ytlC	ytlD	ytkC
ythA	ythB	mntD	mntC
cwlK	mntB	znuA	znuC
thiT	floT	nfeDB	znuB
ktrA	ktrB	yubD	uppP
yubA	tlpB	mcpA	tlpA
mcpB	yugS	yceD	mstX
kbfO	yugM	kinB	kapB
bofA	yceF	yuxJ	pbpD
yufK	maeL	nupN	nupO
nupP	nupQ	maeN	yufS
mrpA	mrpB	mrpC	mrpD
mrpE	mrpF	mrpG	comP
comQ	niaP	yueF	yueC
yueB	yukAB	yukC	yceJ
dhbF	bioYB	hisP	opuAA
yuzG	yutK	opuAB	cotNH
opuAC	fisB	yunE	pucJ
pucK	ycgA	frlP	frlM
frlN	frlO	frlB	metQ
metP	metN	lctP	fadE
mdtP	mdr	feuV	htrB
cssS	gerAA	gerAB	gerAC
ycgF	liaS	liaF	liaI
yvqJ	yvrA	yvrB	yvrC
yvrG	ycgH	rsiO	yvrN
yvrO	yvrP	fhuC	fhuG
fhuB	lysP	yvsG	ltaSP
modA	modB	nhaK	yvgT
bdbC	bdbD	cadA	copA
tmrB	yvaD	yvaE	secG
yvaQ	opuBD	opuBC	opuBB
opuBA	sdpB	sdpI	opuCD
opuCC	opuCB	opuCA	yvbG
yvbI	yvbJ	eno	araE
cyeB	yvbW	yvfT	yvfS
yvfR	ganQ	ganP	ganS
lutP	epsL	epsK	epsG
epsE	epsC	epsA	putP
pbpE	levB	aspP	psmA
psmB	mdxJ	mdxG	mdxF
mdxE	mdxD	ycgQ	yvdB
psdB	psdA	psdS	ycgR
bmrA	yvcA	yvoD	lgt
pchE	yvlA	csbA	yvkA
minJ	ftsX	ftsE	cccB
yvjA	secA	comFA	nasA
tagV	tagO	tuaF	tuaE
tuaB	tuaAc	tuaAn	lytB
yciB	lytA	tagU	ggaB
tagH	tagG	tagF	tagB
zinU	gerBA	gerBB	gerBC
ywtG	tagT	edmS	yckA
rbsD	rbsA	rbsC	rbsB
yckB	ywrK	ywrE	chrB
chrA	yckC	tkmA	mscL
mbl	nin	ywoG	pucI
ywoD	ywoB	amtB	glnK
bcrC	nucA	ywnJ	spoIIQ
ywnG	ywnF	clsA	ywnC
tlpC	ywmF	ywmE	spoIID
atpC	atpD	atpG	atpA
atpH	atpF	atpE	atpB
atpI	mntP	ywlA	ywkF
ywkB	srfAA	srfAB	fadF
clsB	ywjB	ywjA	clsC
narI	narH	narG	ywiC
narK	srfAC	albB	albC
albD	albG	pbpG	srfT
ywhC	mmr	ycxB	ywfM
ycxC	bacE	ywfA	rocC
spsG	ywdK	ywdJ	ywdE
ywdD	sacP	nirC	rodA
ywcE	qoxD	qoxC	qoxB
qoxA	tcyC	ywcD	vbfB
vbfA	efeB	tcyB	efeM
efeU	cidA	cidB	ywbF
tcyA	ywbA	sacX	ywaF
menA	dltB	dltD	licC
yxlH	yxlG	yxlF	yxlC
yxlA	cydD	cydC	cydB
cydA	cimH	yxkH	msmX
gdnE	yxjN	yxjM	yxjJ
dtpT	yxjC	nupG	citH
yxiO	yczF	gerKA	yxxF
bglP	gerKC	hutM	gerKB
nupC	yxxB	yxeR	yxeO
yxeN	yclH	yxeM	yxeG
yclI	yxeC	tpeM	tpeL
tpeK	iolF	yclK	yxcE
csbC	yxcA	yxaM	yxaJ
yxaI	yxaH	yxaC	gntP
ahpF	liaM	liaL	liaK
yycQ	pbtN	rocE	htrC
walI	walH	pbtO	walK
pbtP	yycB	yycA	gdpP
pbtQ	yybP	yybO	ycnB
yybL	yybK	yybJ	yybF
yyaP	tetB	yyaM	yyaK
yyaJ	parA	nocA	oxaAA
glcU	cutI	cutJ	ycnL
mtlA	sipU	pxpG	yczI
amj	ydaL	kimA	mntH
dctS	dctP	ydbI	ydbJ
ydbK	ydbL	ydbO	cshA
ydbS	ydbT	ydcC	conQ
conB	conC	conD	conE
conG	yddI	yddM	yddS
ydeD	ydeG	ydeJ	ydeO
prtG	ydeR	ydfC	ydfH
ydfJ	mneP	ydfR	ydfS
ydgD	ydgF	ydgH	ydgK
ydhB	ydhH	pbuE	tatAY
tatCY	ydiK	ydjG	ydjH
ydjJ	iolT	gabP	mneS
yebA	pbuG	yebC	yebE
yabM	purL	yecA	yerB
yerD	yerH	sapB	opuE
spcP	srfP	spcQ	yeeG
divIC	yesK	yesL	yesM
yesO	rhgP	rhgQ	rhgR
lplA	lplB	lplC	yetF
calJ	yetK	spoIIE	yfnC
mtrA	yfmQ	copO	yfmI
fecF	fecE	fecD	prkT
fecC	maeS	citS	citM
yflI	nagP	ltaSB	yflA
yfkT	yfkS	yfkR	yfkQ
treP	ftsH	yfkL	rbn
yfkF	chaA	mscC	yfjQ
yfjF	yfjE	yfjD	malA
malP	yfiB	yfiC	catD
yfiG	linJ

SW 6.3 GTP-binding proteins

rsgA	rbgA	hflX	der
era	lepA	rgpH	obgE
engB	engD	mnmE

SW 6.4 Phosphoproteins

linK	sxzY	thiC	katA
glpK	pgcA	yhcY	yhcZ
sspB	yheA	scoC	yhfK
ctsR	comK	mcsA	clpC
oppA	yjbK	thiG	manR
manP	rplK	yjoA	rpoB
rpoC	dppA	rpsL	rpsG
fusA	metE	rsbRB	tufA
ykoG	ykoH	ykoM	rpsJ
mtnA	mtnK	kinD	rplW
glcT	ptsG	ptsH	ptsI
rplV	kinA	cheV	kre
fruA	rplNA	kinC	pdhB
pdhD	rpsNA	rpsH	ylbN
gerR	guaB	divIVA	pyrB
infA	gmk	prkC	rsgA
rpsM	yloV	sucC	sucD
codY	fliY	cheY	cheB
cheA	tsf	asd	rpsI
recA	glnA	pdxS	tktA
yneI	ynfE	gltA	yoxD
desK	desR	odhB	odhA
rsbRC	murP	murQ	yorK
glmM	thyB	gpsB	ypqE
ypoC	ypiF	aroF	ndk
hbs	ybdJ	rpfA	gudB
ybdK	resE	resD	ybdM
spoIIAA	pupG	deoB	gndA
bkdAB	spo0A	comGA	rsbRD
rpmGA	pstS	sodA	zur
trmK	dnaK	hrcA	yqbO
gamP	yrkQ	yrkP	yrkO
glnJ	glnL	levE	levD
levR	iscSA	aspS	apt
nadB	spo0B	ycbL	ysxA
ycbM	hemB	tig	leuC
leuB	ilvC	ilvB	ysnF
sdhA	fadB	lytT	lytS
coaE	phoR	phoP	mdh
icd	citZ	pyk	pfkA
accD	argG	sspA	aroX
brxJ	ytxH	natK	natR
ytnP	melA	bceS	bceR
rpmEB	mntB	menB	glgP
pgi	yceE	yugG	kinB
maeL	maeM	comA	comP
adeR	dhbF	dhbC	frlP
frlB	sufC	lctE	cssR
cssS	liaR	liaS	yvrG
yvrH	oxdC	yvrO	csoR
eno	pgm	tpiA	pgk
gapA	lutC	lutB	yvfU
yvfT	ganA	epsE	epsB
pnbA	clpP	psdS	psdR
crh	mgfK	hpf	flgN
comFC	comFA	degU	degS
tuaD	gtaB	ggaA	tagE
zinU	alsD	ywrJ	cotB
NA	uglF	ptkA	ywpJ
ssbB	ywpD	nin	atpD
atpA	atpH	glyA	srfAA
tal	fbaA	spo0F	srfAB
srfAC	albF	pta	hemQ
rocA	sacP	sacT	sacX
sacY	tyrZ	licA	licB
licR	yxjM	yxjL	licT
wapI	bglP	tpeK	tpeJ
yclJ	iolE	yclK	ahpC
ahpF	ptsJ	argI	walK
walR	purA	ycnE	ssbA
mtlA	mtlF	mtlR	dnaH
dctS	dctR	ydcC	rsbRA
rsbS	abrB	rsbV	tex
metS	ydfH	ydfI	gmuB
gmuA	spoVG	groES	groEL
bdhA	ydjO	yerA	yerB
gatC	yesM	yesN	yetI
ltaSA	gyrB	yfmG	citS
citT	nagP	ltaSB	treP
yfkK	yfjR	yfjC	malP
linJ

SW 6.4.1 Phosphorylation on an Arg residue

thiC	katA	yheA	scoC
ctsR	comK	mcsA	clpC
rplK	rpoB	rpoC	rpsL
rpsG	tufA	ykoM	mtnA
mtnK	rplW	rplV	kre
rplNA	rpsNA	rpsH	ylbN
divIVA	gmk	rpsM	yloV
fliY	rpsI	recA	pdxS
gltA	odhB	odhA	thyB
ypiF	aroF	hbs	gudB
bkdAB	comGA	rpmGA	hrcA
iscSA	apt	nadB	ysxA
hemB	tig	leuC	leuB
ilvC	ilvB	fadB	mdh
icd	pfkA	accD	argG
aroX	ytxH	melA	rpmEB
mntB	menB	yceE	yugG
frlB	oxdC	yvrO	csoR
gapA	lutC	lutB	yvfU
ganA	clpP	hpf	flgN
comFC	comFA	gtaB	ggaA
zinU	ywpJ	ssbB	nin
atpH	srfAA	srfAB	albF
iolE	ahpF	purA	ssbA
tex	groEL	bdhA	ydjO
yerA	gatC	yfmG

SW 6.4.2 Phosphorylation on an Asp residue

linK	yhcZ	ykoG	cheV
cheY	cheB	yneI	desR
ybdJ	resD	spo0A	yrkP
glnL	ycbL	lytT	phoP
natR	bceR	maeM	comA
cssR	liaR	yvrH	yvfU
psdR	degU	spo0F	yxjL
tpeJ	yclJ	walR	dctR
ydfI	yesN	citT

SW 6.4.3 Phosphorylation on a Cys residue

manP	ptsG	fruA	murP
gamP	sacP	sacX	licB
licR	bglP	mtlA	mtlR
gmuB	nagP	treP	malP

SW 6.4.4 Phosphorylation on a His residue

glpK	yhcY	manR	manP
ykoH	kinD	glcT	ptsG
ptsH	ptsI	kinA	fruA
kinC	cheA	desK	ypqE
ybdK	resE	gamP	yrkQ
yrkO	glnJ	levE	levD
levR	spo0B	ycbM	lytS
phoR	natK	bceS	kinB
maeL	comP	cssS	liaS
yvrG	yvfT	psdS	degS
ywpD	sacY	licA	licR
yxjM	licT	bglP	tpeK
yclK	ptsJ	walK	mtlF
dctS	ydfH	gmuA	yesM
citS	malP	linJ

SW 6.4.5 Phosphorylation on a Ser residue

thiC	sspB	yjbK	manP
fusA	rpsJ	ptsH	ptsI
pdhB	gerR	pyrB	sucC
codY	tsf	asd	recA
rsbRC	murQ	glmM	ypoC
ndk	rpfA	spoIIAA	pupG
trmK	yqbO	ilvC	mdh
citZ	pyk	sspA	aroX
ytnP	adeR	dhbF	dhbC
frlP	eno	pgm	tpiA
pgk	pnbA	crh	degS
tagE	ywrJ	cotB	NA
srfAA	tal	srfAB	srfAC
hemQ	licB	ahpF	argI
ycnE	mtlA	rsbS	abrB
rsbV	metS	spoVG	groES
yerA	yetI	gyrB	yfkK
yfjC

SW 6.4.6 Phosphorylation on a Thr residue

oppA	fusA	rsbRB	prkC
rsgA	rsbRC	gpsB	ndk
hbs	ybdM	deoB	gndA
rsbRD	sodA	aroX	pgi
eno	pgk	mgfK	NA
fbaA	tyrZ	dnaH	ydcC
rsbRA	yetI	ltaSB

SW 6.4.7 Phosphorylation on a Tyr residue

thiC	oppA	yjoA	fusA
tufA	infA	asd	ynfE
yorK	lctE	eno	epsE
epsB	flgN	tuaD	uglF
ptkA	ssbB	ahpF	ssbA

SW 6.4.8 Phosphorylation on either a Ser, Thr or Tyr residue

sxzY	pgcA	yhfK	thiG
dppA	metE	tufA	pdhD
guaB	sucD	glnA	pdxS
tktA	yoxD	pstS	zur
dnaK	aspS	tig	ysnF
sdhA	coaE	icd	brxJ
glgP	sufC	gapA	gtaB
alsD	atpD	atpA	glyA
pta	rocA	wapI	ahpC
groEL	yerB	ltaSA	yfjR

SW 6.4.9 Phosphoproteins / Other

sacT

SW 6.5 Universally conserved proteins

gltX	rplK	rpsG	rpsJ
rplC	rplB	rpsS	rpsC
rpsQ	rplNA	rplE	rpsH
rplF	rplR	rpsE	secY
rpsM	rpsB	truA	apt
pheS	rpsD	eno	pgk
argS	tsaD	groES	prs

SW 6.6 Poorly characterized/ putative enzymes

ephM	ygaK	yhcB	glpW
yhxA	azr	citA	yhdF
yhdR	yheN	yhaR	sndC
yhfE	yhfO	yhfP	yhfS
yhfT	yhxC	yhxD	yhjG
mblK	yisY	yitF	yitI
yitY	yjcG	yjdA	yjjA
yjlA	ykcC	ykhA	ykkB
ybaC	ykoT	ykoX	ykvO
ykvQ	ohaC	ppeE	panE
ykqA	ykrA	yktD	ylaK
ylbB	ylbK	rsmH	ylmE
ylxY	ymfH	ynbB	ynaI
yncB	alrB	yneP	yngC
yoxD	yoaA	yoaC	yoaI
yobN	dhaS	yodA	kamA
kamB	yodQ	yodR	yodS
yodT	yotH	yotF	yotD
yotC	nrdFB	nrdIB	nukF
ybcF	ypjD	ypzK	yqkF
yqjY	dsdA	yqjQ	yqjN
yqjE	yqjD	yqhS	yqgQ
folN	phoH	yaaI	ybfM
yqeG	yqeC	yrdN	yrdF
yrpB	yrpG	prpF	adhB
yrhH	yrrT	yrrO	yrrN
yrrL	yrbE	ysnE	rdgB
glcD	glcF	egsA	araL
ytbE	ycbU	ribR	ytkK
ytcI	ytoP	ytlP	ytkP
ytjP	ytqB	ytpA	ytiB
ytdA	ytcA	ytcB	ycdF
ycdG	cdoA	yceB	uppP
bdhK	bdhJ	yugH	yugF
yuxO	bznD	yuiH	bioYB
pepA	yuxL	nucF	amhX
dadA	yusQ	yusR	yusS
yusZ	yvqK	yvrD	yvrE
yvaG	estA	yvaM	ycgJ
yvbT	yvdD	yvdA	ycgS
hprF	ppaX	yvkC	ywpJ
fdhD	hmtB	ywdH	ywcH
eapD	xpaC	aldY	yclE
yxjF	yxiM	yxeQ	hadM
yxbG	aldX	yxbA	yxnA
yxaB	glxK	yycR	yycN
yaaO	yyaH	ycsA	ycsN
ydaB	ydaD	ydaF	ydaM
poxB	ydbM	yddN	yddR
ydzF	ydgI	ydjP	yerA
yerD	yabR	spmH	spmG
pynN	vdhT	yfmJ	acyP
yfkA	yfjR

SW 6.7 Proteins of unknown function

icaC	yfhB	yfhC	yfhH
yfhJ	yfhP	ygaB	ygaC
ygaE	ygzB	ygxA	ygzA
ygzC	ygaJ	ygaN	ygaO
yhzB	yhbD	yhbJ	yhcC
yhcD	yhcU	yhcX	yhzG
yhdJ	yhdX	yheG	yheE
yheB	yheA	yhzD	yhaI
yhaH	yhzF	ecsC	yhgB
yhgE	yhfC	yhfF	yhfH
yhfI	yhfK	yhzC	yhjA
yhjC	yhjD	yhjE	yhjN
yisL	yizA	yisQ	yisU
yisX	yitH	yitK	yitL
yitM	yitO	yitP	yitR
yizC	yitV	yjzC	yjzD
yjaU	yjbK	yjbL	yjzK
yjcF	yjcH	yjcL	yjcM
yjcN	yjzF	yjzG	yjcO
yjcP	yjcQ	yjcR	yjcS
yjdB	yjdF	yjdG	yjzH
yjdJ	yjfB	yjfC	yjgA
yjhA	yjiA	yjzI	yjlB
yjlC	yjoA	yjpA	yjqA
rlmG	ykaA	ykcB	ykkA
ykzN	ykoI	ykoJ	ykzB
ykoL	ykzP	ykrP	ykvA
eag	ykzQ	ykzR	ykvR
ykvS	ykzS	ykwD	ykzT
ykzU	ykuH	ykuI	ykuJ
ykuK	ykuL	ykuO	ykoA
ykzV	ykyA	slp	yktA
yktB	suhB	ykzC	ylaA
ylaB	ylaE	ylaF	ylaH
ylaI	ylaL	ylaN	ylbA
ylbG	ylzH	ylbN	ylbP
mraZ	ylmG	ylmH	ybzG
yloC	yloU	ylqC	ylqD
ylqG	ylxF	rulR	ymfF
cinA	ybaJ	ymzD	ymcC
ymaE	ymzC	ymzA	ymaB
ynxB	ynzF	ynzG	ynaB
ynaC	ynaE	ynaF	ynaG
ynzI	ynzJ	yncM	ynzK
flvS	yndG	yndH	yndJ
yndK	ynzC	yneJ	yneK
yneQ	yneR	yneT	ynfCn
yngA	yoeC	yoeD	yogA
yoaK	yozS	yoaO	yoaP
yoaS	yoaT	yoaZ	yobA
yozU	yobB	yozV	yozH
yozI	yobF	yozW	yozX
yozJ	yozY	yozZ	yozM
yobI	yoyA	yobM	yobO
yobR	yobT	yobU	yobV
yocA	yozB	yocC	yozC
yojO	yojF	yoyC	yojE
yoyD	pgpB	ybbJ	ybbK
yomL	youB	yokH	ybcC
ypmT	ypmS	ypmR	ybcH
ypmP	ypkP	ypjQ	ypjP
ybcI	rsmJ	ypgR	ypzF
ypbS	ypsA	yppF	yppE
ypoC	ypmA	ypjC	ypjA
ypiF	ypiB	ypiA	skfG
skfH	ybdG	yphF	yphE
ypzI	ypbF	ypbD	gmmB
ybzI	ypzE	ypuF	ybdN
ybdO	ypzJ	ypuB	yqzK
yqkK	yqkE	yqkD	yqkC
yqkB	yqkA	yqjZ	yqzH
yqjU	yqjU	yqjT	yqjP
yqjF	yqjA	yqzF	yqiH
yqiG	ybfA	yqhL	ybfB
ybfEc	yqgY	yqgX	yqgW
yqgV	yqgU	ybfF	yqgM
yqgL	yqzD	yqzC	ybfH
yqgC	yqgB	yqgA	yqfW
yqfO	antE	yqxD	yqzL
yqeY	yqzM	yqeM	yqeK
yqeF	yqeD	yqeB	ybfN
yrkS	psiE	yrkO	yrkN
yrkK	yrkI	yrkH	yrkF
yrkE	yrkD	yrzM	yrkB
yrzO	yrdR	yrdK	yrdC
yrdB	yrdA	yrpD	yraL
yraK	yraJ	yraI	yraH
yrzP	yrhP	yrhO	yrzI
yrhF	yrhE	yrhD	yrhC
yrzB	yrzL	yrzQ	yrzR
yrrB	yrvD	yrvC	yrbF
yrzS	yrzF	S1052	yrzH
yrzH	yrzT	yrbC	yszA
ysxD	ycbO	ysnB	ysmA
yslB	yshE	yshB	ysfE
yczK	ysdA	yscB	ytxB
ebfC	ytzA	ytzJ	ytpI
ytzD	ytzD	ytcJ	yczC
msrC	ytzK	yccF	acuB
ytoQ	ytzB	ytmP	ytlR
ytlQ	ytfP	rmgU	rmgS
ytbQ	ytaP	ytwF	yttA
ytqA	ycdB	ytmB	ytmA
ytzI	ycdC	ytkA	yaaL
yuaE	yuaD	yubF	yuzH
yugP	yuzI	yugN	yugM
yugI	yugE	yuxK	yufK
yueI	yueH	yueE	yukE
yukJ	mbtH	hisP	yuiD
yuiB	yuiA	yuzG	yuzB
yuzD	yutI	yutE	yutD
yunD	yunF	yunG	yuzJ
ycgA	ycgB	yurQ	yuzK
yusD	yusF	yusG	yusU
yuxN	yvzF	yvrP	yvsG
yvaD	yvbG	yvbH	yvbI
yvbJ	yvbK	yvbX	yvfG
yveG	yveF	mdxJ	yvdC
yvcT	yvzJ	yvcN	yvcD
yvzA	yvcB	yvpB	yvoD
yvnA	yvkN	yvjA	yviE
yvyE	yczL	ywsA	ywrF
hpxW	ywqO	ywqN	ywqG
ywzD	ywqB	ywpG	ywpF
ywpE	ywoF	ywoB	ywnF
ywnC	ywnB	ywnA	ywzE
ywzF	ywmD	ywmC	ywzB
mntP	ywlA	ywkD	ywkB
ywjG	ywjB	ywiC	ywiB
ywhL	ywhK	ywhH	ywhD
srfT	ywhC	ywgB	ycxB
ywgA	ywfO	ywzC	ywfM
ycxC	ywdI	ywdF	ywdE
ywdD	ywdA	yczE	ywcI
cidA	cidB	ywbF	ywbE
ywzH	yxkI	yxkH	yxkF
gdnE	yxkC	yxkA	yxjN
yclG	yxiP	yxiO	yxzI
yxzJ	yxiK	yxiJ	yxiI
yxzG	yxiH	yxiG	yxzC
yxiF	yxxF	yxiE	yxxE
yxiC	yxiB	yxzL	yxxB
yxeJ	yxeG	yxeF	yxeC
yxeA	yxcE	yxcD	yxcA
yxbD	yxbC	yxbB	yxnB
yxaJ	yxaI	yxzK	yxaC
yyzN	yydD	yydC	yydB
yyzF	yycS	yyzG	yyzO
yycE	yycC	yycA	yybS
yyzH	yyzI	yyzJ	yyzK
yyzL	yybN	yybM	yybH
yybG	yybD	yybC	yybB
yyaT	yyaS	yyaQ	yyaP
yyaO	yyaM	yyaK	yyaJ
ycnE	engD	yyzM	yyaB
cutI	ycnL	darA	yczH
yczO	pxpI	yaaR	yczI
yczJ	ydaC	ydzA	ydzK
ydbA	ydbB	ydbC	trmNF
ydbI	ydbL	yazA	ydcF
ydcG	ydcK	ydzL	ydcO
ydcS	ydcT	yddA	yddF
dayD	yddI	yddJ	yddK
yddM	yddQ	ydzM	yddT
ydzN	ydzE	ydeD	ydeH
ydeI	ydeJ	ydeK	ydeM
ydeN	ydeO	ydzO	ydfB
ydfC	ydfE	ydfG	ydzP
ydzQ	ydfK	ydzH	ydzR
ydgD	ydhH	ydhI	ydhJ
ydiK	ydiL	ydiM	ydzU
ydjB	ydjC	ydjG	ydjH
ydjI	ydjJ	ydjN	ydzJ
ydzX	yeaC	yeaD	yebA
yebD	yebE	yebG	yabN
yezF	yerH	yerI	yeeB
yeeC	yeeD	yezA	yeeG
yeeI	yesE	yesF	yesL
yesU	yetH	yezD	yetK
yetN	yfmQ	yfmN	yfmG
yfmB	yflP	yflI	yflD
yflB	yfkK	yfjT	yfzA
yfjM	yfjF	yfjE	yfjD
yfjC	yfjB	yfjA	yfiH
yfiI

SW 6.8 Short peptides

phrA	phrK	phrE	comS
phrF	phrC	phrG	fbpB
phrI	phrH

SW 6.9 NcRNA

rgpA	S717_BsrG	bsrB_6S_ssrSA	spbT
S810_asrG	rnpB_RNaseP-bact-b_rnpB	ratA_ratA	S977
S1022_ncr1175_surF	scr_Bacteria-large-SRP_scr	bsrA_6S_ssrSB	yuzK
ssrA_tmRNA_ssrA